SciDataReportR

Streamlining Scientific and Clinical Data Exploration in R

Raha Dastgheyb

Johns Hopkins School of Medicine

Data Analysis

By harnessing the full power of our data, we can honor the contributions of our participants and researchers

Challenges:

Unfamiliarity with variables
Caveats and sources of error
Missing Data
High dimensionality
Coding reproducibility

Installation

Currently available on github

github.com/RDastgh1/SciDataReportR

devtools::install_github("RDastgh1/SciDataReportR")

Data Analysis Pipeline

Data Import and Codebook

knitr::kable(AlzheimersData[1:15,])

Diagnosis	age	sex	Genotype	ACE_CD143_Angiotensin_Converti	ACTH_Adrenocorticotropic_Hormon	AXL	Adiponectin	Alpha_1_Antichymotrypsin	Alpha_1_Antitrypsin	Alpha_1_Microglobulin	Alpha_2_Macroglobulin	Angiopoietin_2_ANG_2	Angiotensinogen	Apolipoprotein_A_IV	Apolipoprotein_A1	Apolipoprotein_A2	Apolipoprotein_B	Apolipoprotein_CI	Apolipoprotein_CIII	Apolipoprotein_D	Apolipoprotein_E	Apolipoprotein_H	B_Lymphocyte_Chemoattractant_BL	BMP_6	Beta_2_Microglobulin	Betacellulin	C_Reactive_Protein	CD40	CD5L	Calbindin	Calcitonin	CgA	Clusterin_Apo_J	Complement_3	Complement_Factor_H	Connective_Tissue_Growth_Factor	Cortisol	Creatine_Kinase_MB	Cystatin_C	EGF_R	EN_RAGE	ENA_78	Eotaxin_3	FAS	FSH_Follicle_Stimulation_Hormon	Fas_Ligand	Fatty_Acid_Binding_Protein	Ferritin	Fetuin_A	Fibrinogen	GRO_alpha	Gamma_Interferon_induced_Monokin	Glutathione_S_Transferase_alpha	HB_EGF	HCC_4	Hepatocyte_Growth_Factor_HGF	I_309	ICAM_1	IGF_BP_2	IL_11	IL_13	IL_16	IL_17E	IL_1alpha	IL_3	IL_4	IL_5	IL_6	IL_6_Receptor	IL_7	IL_8	IP_10_Inducible_Protein_10	IgA	Insulin	Kidney_Injury_Molecule_1_KIM_1	LOX_1	Leptin	Lipoprotein_a	MCP_1	MCP_2	MIF	MIP_1alpha	MIP_1beta	MMP_2	MMP_3	MMP10	MMP7	Myoglobin	NT_proBNP	NrCAM	Osteopontin	PAI_1	PAPP_A	PLGF	PYY	Pancreatic_polypeptide	Prolactin	Prostatic_Acid_Phosphatase	Protein_S	Pulmonary_and_Activation_Regulat	RANTES	Resistin	S100b	SGOT	SHBG	SOD	Serum_Amyloid_P	Sortilin	Stem_Cell_Factor	TGF_alpha	TIMP_1	TNF_RII	TRAIL_R3	TTR_prealbumin	Tamm_Horsfall_Protein_THP	Thrombomodulin	Thrombopoietin	Thymus_Expressed_Chemokine_TECK	Thyroid_Stimulating_Hormone	Thyroxine_Binding_Globulin	Tissue_Factor	Transferrin	Trefoil_Factor_3_TFF3	VCAM_1	VEGF	Vitronectin	von_Willebrand_Factor	tau	p_tau	Ab_42	Group	Race	Marital	Height	Income	Smokes	Smoker
Control	0.9876238	0	E3E3	2.0031003	-1.3862944	1.0983867	-5.360193	1.7404662	-12.63136	-2.577022	-72.65029	1.0647107	2.510547	-1.427116	-7.402052	-0.2613648	-4.624044	-1.2729657	-2.312635	2.0794415	3.7545215	-0.1573491	2.296982	-2.200744	0.6931472	34	-4.074542	-0.7964147	0.0953102	33.21363	1.3862944	397.6536	3.555348	-10.36305	3.573725	0.5306283	10.0	-1.710173	9.041922	-0.1354543	-3.688880	-1.349543	53	-0.0833816	-0.6516715	3.1014922	2.5208712	3.329165	1.2809338	-7.035589	1.381830	2.949822	1.0641271	6.559746	-3.036554	0.5877867	3.433987	-0.1907787	5.609472	5.121987	1.282549	4.192081	5.731246	-6.571283	-3.244194	2.484907	1.0986123	0.2693698	0.6427959	4.8050453	1.711325	6.242223	-6.812445	-0.6258253	-1.204295	1.7047481	-1.5290628	-4.268698	6.740519	1.9805094	-1.237874	4.968453	3.258097	4.478566	-2.207275	-3.270169	-3.7735027	-1.8971200	4.553877	5.003946	5.356586	1.0035016	-2.902226	4.442651	3.218876	0.5787808	0.0000000	-1.620527	-1.784998	-0.8439701	-6.214608	-16.475315	1.561856	-0.9416085	-1.897120	5.609472	-5.599423	4.908629	4.174387	8.649098	15.20465	-0.0618754	-0.1829004	2.944439	-3.095810	-1.340566	-0.1026334	4.149327	-3.863233	-1.4271164	2.0412203	3.332205	-3.381395	3.258097	22.03456	-0.0408220	-3.146555	6.297754	4.348108	12.019678	Treatment	White	Widowed	61	44590.10	FALSE	TRUE
Control	0.9861496	0	E3E4	1.5618560	-1.3862944	0.6832816	-5.020686	1.4586150	-11.90988	-3.244194	-154.61228	0.7419373	2.457283	-1.660731	-7.047017	-0.8675006	-6.747507	-1.2729657	-2.343407	1.3350011	3.0971187	-0.5753962	1.673121	-1.728053	0.4700036	53	-6.645391	-1.2733760	-0.6733446	25.27636	3.6109179	465.6759	3.044522	-16.10824	3.600047	0.5877867	12.0	-1.751002	9.067624	-0.3700474	-3.816713	-1.356595	62	-0.5276327	-1.6272839	2.9788133	2.2477966	3.932959	1.1939225	-8.047190	1.372438	2.721793	0.8670202	8.754531	-4.074542	0.5306283	3.135494	-0.4620172	5.347107	4.936704	1.269463	2.876338	6.705890	-8.047190	-3.912023	2.397895	0.6931472	0.0962244	0.4311565	3.7055056	1.675557	5.686975	-6.377127	-0.9431406	-1.197703	1.5260563	-1.4660558	-4.933674	6.849066	1.8088944	-1.897120	3.690160	3.135494	3.781473	-2.465104	-3.649659	-5.9681907	-0.7550226	4.219508	5.209486	6.003887	-0.0305988	-2.813276	4.025352	3.135494	0.3364722	-0.5108256	-1.739232	-2.463991	-2.3025851	-6.938214	-16.025282	1.756621	-0.6539265	-1.560648	5.814131	-6.119298	5.478731	3.713572	11.331619	11.26650	-0.3285041	-0.5007471	2.833213	-3.111190	-1.675252	-0.6733501	3.810182	-4.828314	-1.6094379	2.0281482	2.890372	-3.912023	2.708050	18.60184	-0.3856625	-3.863233	6.659294	4.859967	11.015759	Treatment	Black	Divorced	67	47708.38	TRUE	FALSE
Control	0.9866667	1	E3E4	1.5206598	-1.7147984	-0.1452763	-5.809143	1.1939225	-13.64296	-2.882404	-136.52918	0.8329091	1.976365	-1.660731	-7.684284	-0.6539265	-3.976069	-1.7147984	-2.748872	1.3350011	2.7530556	-0.3448394	1.673121	-2.062421	0.3364722	49	-8.047190	-1.2415199	0.0953102	22.16609	2.1162555	347.8639	2.772589	-16.10824	4.474569	0.6418539	10.0	-1.383559	8.954157	-0.7329871	-4.755993	-1.390672	62	-0.6348783	-1.5630004	1.3600098	0.9063009	3.176872	1.4109870	-7.195437	1.412679	2.762231	0.8890150	7.745463	-3.649659	0.0953102	2.397895	-0.4620172	5.181783	4.665910	1.274134	2.616102	4.149327	-8.180721	-4.645992	1.824549	-0.2484614	0.1856864	0.0966859	1.0056222	1.691393	5.049856	-6.319969	-1.4466191	-1.191191	1.1631508	-1.6622675	-5.843045	6.767343	0.4005958	-2.302585	4.049508	2.397895	2.866631	-2.302585	-2.733368	-4.0302269	-1.3862944	4.248495	4.744932	5.017280	0.4383721	-2.935541	4.510859	2.890372	-0.8915981	-0.1392621	-1.636682	-2.259135	-1.6607312	-6.645391	-16.475315	1.435728	0.3364722	-2.207275	5.723585	-5.381699	3.810182	3.433987	10.858497	12.28286	-0.4155154	-0.9240345	2.944439	-3.166721	-1.534276	-0.9229670	2.791992	-4.990833	-1.8971200	1.4350845	2.890372	-3.729701	2.639057	17.47619	-0.2231436	-3.540459	6.270988	4.400247	12.302271	Treatment	White	Divorced	71	4118.95	TRUE	FALSE
Control	0.9867021	0	E3E4	1.6808260	-1.6094379	0.6832816	-5.115996	1.2809338	-15.52356	-3.170086	-98.36175	0.9162907	2.376085	-2.120264	-8.047190	-1.2378744	-6.517424	-1.9661129	-2.995732	1.4350845	2.3713615	-0.5317281	1.980509	-1.982912	0.6418539	52	-6.214608	-1.1238408	-0.3285041	23.45584	-0.1508229	334.2346	2.833213	-13.20556	3.097119	0.5306283	14.0	-1.647864	9.581904	-0.4218532	-2.937463	-1.367775	44	-0.4780358	-0.5902871	2.5372201	0.6237306	3.138093	0.7419373	-7.799353	1.372438	2.885476	0.7083677	5.949436	-3.816713	0.4054651	3.367296	-0.8572661	5.424950	6.223931	1.307549	2.441056	4.695848	-7.600903	-4.268698	1.481604	0.7884574	-0.3711641	0.5751964	2.3362105	1.719944	5.602119	-7.621105	-1.4852687	-1.231557	1.2237754	-1.2693924	-4.990833	6.781058	1.9805094	-1.660731	4.928562	3.218876	2.968511	-1.771957	-4.074542	-6.8561489	-1.1394343	4.110874	4.969813	5.768321	0.0000000	-2.786601	3.433987	2.833213	-0.8209806	-0.0408220	-1.739232	-2.703457	-1.1086626	-5.991465	-13.501240	1.254400	-0.1984509	-3.146555	5.771441	-6.645391	3.402176	3.951244	9.454406	11.11488	-0.3424903	-0.3848591	2.944439	-3.155652	-1.975407	-0.7510004	4.037285	-4.892852	-2.0402208	2.0281482	2.890372	-3.816713	2.772589	17.54560	-0.6539265	-3.863233	6.152733	4.494886	12.398138	Treatment	White	Separated	67	55764.07	FALSE	FALSE
Control	0.9871630	0	E3E3	2.4009308	-0.9675840	0.1908902	-4.779524	2.1282317	-11.13306	-2.343407	-144.94460	0.9555114	2.862219	-1.171183	-6.725434	0.0953102	-3.378594	-0.7550226	-1.514128	1.6292405	3.0671471	0.6626345	2.296982	-1.241520	0.3364722	67	-4.342806	-0.9240345	0.3633120	21.83275	1.3083328	442.8046	3.044522	-12.81314	7.245150	0.9162907	11.0	-1.625834	8.977146	-0.6206034	-2.364460	-1.339440	64	-0.1278334	-0.9763009	4.0372847	2.6345883	2.690416	2.1517622	-6.980326	1.398431	2.851987	1.2358607	7.245150	-3.146555	0.5306283	3.761200	0.0971503	5.420535	7.070709	1.309980	4.736472	4.204987	-6.943657	-2.995732	2.708050	1.1631508	-0.0720466	0.0966859	4.2875620	1.764298	6.369901	-4.645992	-0.3003110	-1.163800	1.3609766	-0.9151068	-2.937463	6.722630	2.2208309	-1.897120	6.452764	3.526361	3.690160	-1.560648	-2.617296	-0.2222222	-1.7719568	4.465908	5.198497	5.693732	0.2523047	-2.935541	4.795790	3.663562	0.2623643	0.1823216	-1.696685	-1.659842	-0.5621189	-6.319969	-11.092837	1.301297	0.0953102	-2.430419	5.655992	-5.203007	3.402176	4.060443	8.323453	13.74802	-0.3424903	-0.8582591	3.044522	-3.038017	-1.210709	0.0976177	4.534163	-4.645992	-0.4780358	1.9878743	3.496508	-3.442019	3.044522	20.77860	0.1662155	-3.816713	6.623707	4.524589	11.024109	Control	White	Widowed	70	2655.68	TRUE	FALSE
Impaired	0.9841772	1	E4E4	0.4311565	-1.2729657	-0.2223611	-5.221356	1.3083328	-12.13464	-2.551046	-154.61228	-0.0512933	2.524026	-1.386294	-7.402052	-0.2744368	-2.963532	-1.6607312	-2.312635	1.9169226	0.5911464	0.0971503	2.479838	-1.877412	-0.5447272	51	-7.561682	-1.7844998	0.4054651	13.23155	1.6292405	137.9473	2.564949	-11.98323	3.573725	0.9932518	13.0	-1.671366	7.835975	-1.1112274	-3.442019	-1.363957	57	-0.3285041	-1.6832823	2.4071818	0.6237306	1.847077	1.4816045	-6.437752	1.398431	2.822442	1.1538270	6.413012	-3.079114	0.0953102	2.708050	-0.9351069	5.056246	6.103215	1.282549	2.671032	3.637051	-8.180721	-3.863233	1.208960	-0.4004776	0.1856864	-0.5172779	2.7763945	1.708270	5.480639	-5.809143	-1.3405481	-1.123868	0.6418539	-1.3613474	-4.509860	6.541030	2.3343863	-2.040221	4.603421	2.890372	2.917760	-3.036554	-3.324236	-1.9223227	-1.1394343	4.189655	3.258097	4.736198	0.4383721	-2.935541	4.394449	3.332205	-0.4780358	-0.1508229	-1.755051	-2.357788	-1.1711830	-6.502290	-11.291369	1.054607	-0.3147107	-2.645075	4.543295	-5.115996	2.978813	2.564949	10.008788	11.26650	-0.9416085	-0.7380092	3.044522	-3.125574	-1.451666	-1.0000000	4.534163	-4.422849	-1.2378744	-0.0100503	2.995732	-4.342806	2.208274	13.19761	0.2623643	-4.509860	5.361292	3.465736	11.226711	Treatment	White	Separated	70	118168.21	FALSE	FALSE
Control	0.9854651	1	E2E3	0.9462067	-1.8971200	0.5298221	-6.119298	0.8329091	-12.81314	-3.270169	-149.60441	0.7884574	2.106653	-2.040221	-7.751725	-0.9416085	-7.288830	-1.6607312	-2.375156	1.5260563	4.2548002	-0.3448394	1.673121	-1.845213	-0.0408220	41	-7.581100	-1.0965412	-0.2484614	27.12044	1.0986123	336.9532	3.178054	-16.54531	2.407920	0.8754687	4.9	-1.739232	8.740337	-0.6997987	-5.067206	-1.349543	64	-0.7133499	-1.2988756	3.1014922	1.5975396	3.440588	1.1314021	-7.621105	1.338425	2.739315	1.1421967	6.262563	-3.506558	0.4054651	2.995732	-0.6360404	5.438079	2.031412	1.286356	3.476091	6.705890	-6.907755	-3.296837	1.871802	0.8329091	0.0962244	0.4311565	4.0099156	1.698489	5.451039	-6.645391	-0.8398078	-1.143534	1.2237754	-1.7051413	-6.319969	6.359574	2.1030230	-2.120264	3.551208	2.564949	3.265601	-2.120264	-4.135167	-5.9681907	-1.7719568	4.330733	4.521789	5.318120	0.0000000	-2.590291	3.367296	2.833213	-0.5978370	-0.5276327	-1.659412	-2.259135	-1.5606477	-6.812445	-20.660678	1.301297	-0.6931472	-3.123566	5.509388	-6.032286	4.037285	3.401197	8.649098	12.42221	-0.7765288	-0.6299738	2.890372	-3.133732	-1.675252	-0.3386752	3.342694	-3.963316	-2.1202635	1.6486586	2.708050	-3.649659	2.639057	17.91139	-0.3710637	-4.017384	5.740789	3.747667	14.257867	Treatment	White	Separated	61	71255.68	FALSE	FALSE
Control	0.9862637	1	E2E3	0.7078153	-1.8325815	-0.3266799	-4.879607	1.5260563	-13.31035	-2.900422	-144.94460	0.2623643	2.079076	-1.427116	-6.948577	-0.1625189	-3.888287	-0.9675840	-2.120264	1.7227666	1.9385358	0.0971503	3.703670	-1.982912	-0.0725707	42	-6.165818	-1.8643733	0.5306283	10.96148	1.7404662	166.5501	2.772589	-14.40626	1.048334	0.7884574	13.0	-1.571048	7.736307	-0.9763009	-3.772261	-1.381639	64	-0.7133499	-1.7833269	1.8664764	0.7434918	2.816638	1.6677068	-6.502290	1.350892	2.966101	1.0343625	6.559746	-3.079114	0.1823216	2.890372	-1.2988756	5.365976	5.180840	1.293295	3.593860	4.037285	-7.418581	-2.956512	2.397895	-0.0943107	1.0056222	-0.6096927	3.7055056	1.701858	5.968708	-5.083206	-1.0105157	-1.184754	1.4350845	-1.7517987	-3.863233	6.448889	2.6867663	-1.771957	6.452764	2.833213	1.555303	-2.525729	-3.688880	-2.4721360	-1.2039728	3.828641	3.258097	4.983607	0.4905480	-2.669471	4.343805	2.397895	-0.3147107	-0.3566749	-1.724319	-2.081112	-1.1086626	-6.377127	-6.048172	1.054607	-0.1508229	-2.396896	4.532599	-5.083206	2.665456	2.772589	10.097662	14.49242	-0.9162907	-0.5634790	2.708050	-3.056473	-1.210709	-0.6583592	4.037285	-4.017384	-1.3470736	0.4054651	2.833213	-4.268698	2.564949	13.26878	0.0000000	-4.199705	4.871603	3.200630	12.960102	Control	White	Separated	71	28455.47	FALSE	TRUE
Control	0.9837134	0	E3E3	1.1065417	-1.9661129	0.1908902	-5.167289	0.7419373	-12.90748	-3.649659	-194.94684	0.6418539	2.131782	-2.396896	-7.929406	-0.7765288	-5.941894	-1.7719568	-2.476939	0.9555114	2.7200688	-1.2693924	2.371361	-1.675252	0.0000000	58	-7.070274	-1.4919984	-0.7550226	18.29778	1.2809338	254.4822	2.564949	-19.24771	2.407920	0.9555114	12.0	-1.671366	8.357024	-0.6206034	-4.779524	-1.371699	64	-0.8209806	-0.6053543	3.5787773	0.3480519	2.381781	1.0647107	-7.902008	1.381830	2.584357	0.9853483	9.736307	-4.135167	-0.1625189	3.295837	-1.0641271	5.273000	2.860031	1.282549	2.420557	5.170381	-7.469874	-4.422849	1.808289	-0.1508229	-0.6472472	0.2729658	0.6848724	1.691393	5.375278	-6.645391	-1.4852687	-1.159695	1.0986123	-1.7833269	-4.961845	6.445720	1.8527528	-2.207275	2.162328	2.219203	2.815116	-2.563950	-4.017384	-5.8446454	-1.9661129	5.043425	3.912023	5.049856	-0.4775421	-2.786601	3.526361	2.833213	-0.5276327	0.4054651	-1.763357	-2.167156	-1.6607312	-6.502290	-28.434991	1.001198	-0.5108256	-1.714798	4.941642	-7.013116	2.141223	3.295837	10.777165	10.00000	-0.9416085	-0.7571220	2.772589	-3.128881	-1.413088	-0.8864471	3.637051	-4.605170	-1.4696760	0.6418539	2.564949	-4.199705	2.564949	15.77258	-0.8209806	-4.268698	4.981618	3.461414	13.707650	Treatment	White	Widowed	65	13642.81	FALSE	TRUE
Impaired	0.9882491	0	E2E3	1.6022588	-1.5141277	0.4494897	-5.572754	1.1631508	-12.13464	-2.364460	-144.94460	0.5306283	2.262202	-1.897120	-7.143478	-0.5621189	-6.410533	-1.5141277	-1.966113	1.4816045	3.7036702	-0.1246201	2.182055	-1.877412	0.1823216	59	-6.214608	-1.2415199	0.0000000	20.62742	4.1108739	323.3971	3.044522	-13.00425	4.684412	0.6931472	17.0	-1.631218	8.330864	-0.7845982	-3.772261	-1.382507	70	-0.0725707	-0.6516715	2.7919923	1.1432984	2.516636	1.3862944	-7.058578	1.350892	2.781338	1.0343625	6.108135	-3.244194	0.1823216	2.995732	-1.1112274	5.384495	4.593226	1.269463	3.476091	3.637051	-7.369791	-4.017384	1.808289	0.1823216	-1.5342758	0.0966859	2.1548454	1.701858	5.332719	-5.360193	-1.0340201	-1.163800	1.1314021	-1.5373794	-4.199705	6.381816	1.6263611	-1.609438	4.351997	2.772589	2.917760	-1.966113	-3.270169	-3.0000000	-1.6607312	4.521789	4.234107	5.283204	-0.0956575	-3.033945	3.688880	2.995732	0.2623643	0.7419373	-1.683772	-2.357788	-1.3093333	-6.725434	-15.601770	1.106542	-0.5447272	-2.120264	5.332719	-6.265901	4.037285	3.465736	9.162164	11.11488	-0.8209806	-0.3179451	2.890372	-3.116914	-1.413088	-0.6583592	4.534163	-4.509860	-1.5141277	0.9555114	2.890372	-3.912023	2.639057	15.61805	-0.4004776	-3.912023	6.094134	4.256123	10.529540	Control	White	Separated	76	29113.82	FALSE	TRUE
Impaired	0.9861687	0	E3E4	1.8298706	-0.9942523	0.3664319	-4.840892	1.0986123	-13.31035	-3.079114	-91.36978	0.8329091	2.654255	-1.660731	-7.250246	-0.7550226	-5.702912	-1.5141277	-2.322788	1.4109870	2.7200688	-0.2836788	1.852753	-1.413088	0.1823216	32	-6.645391	-1.3405665	-0.0100503	29.36877	2.6390573	361.5826	3.091042	-11.83803	4.023747	0.8754687	6.8	-1.751002	8.375630	-0.5174908	-3.963316	-1.382507	82	-0.0202027	-0.1795552	3.9808937	0.6237306	3.059644	1.4350845	-7.523941	1.412679	2.701785	0.9676836	8.542148	-3.540459	0.4054651	3.091042	-0.5606761	5.505331	6.919778	1.274134	2.154845	4.749337	-7.849364	-4.509860	1.568616	0.1823216	-1.0965412	0.3540404	2.9244660	1.719944	6.144186	-5.776353	-1.3079612	-1.155616	1.4816045	-1.1867361	-5.572754	6.606650	4.0237466	-1.514128	5.358949	4.007333	3.265601	-2.302585	-3.963316	-3.7735027	-1.6607312	4.875197	4.488636	5.533390	0.2523047	-2.669471	4.356709	3.258097	-1.2729657	0.4054651	-1.690161	-2.081112	-1.2039728	-6.502290	-11.291369	1.756621	-0.0618754	-1.560648	5.488938	-6.119298	4.802628	2.995732	10.777165	10.49000	-0.5108256	-0.3711641	2.833213	-3.111190	-1.534276	-0.8000000	4.908629	-3.442019	-1.3470736	1.4109870	2.772589	-4.017384	2.708050	15.65264	-0.1165338	-3.611918	6.161271	4.425098	9.764051	Control	Black	Widowed	78	5226.36	FALSE	FALSE
Impaired	0.9869622	1	E2E3	1.0011977	-1.7147984	0.3664319	-4.199705	1.9021075	-11.83803	-2.353878	-132.71508	0.2623643	2.289800	-1.771957	-7.469874	-0.4004776	-4.166581	-1.0498221	-1.832582	1.2809338	3.1563503	-0.7845982	2.686766	-1.967975	-0.1053605	43	-4.828314	-1.3405665	0.8329091	20.36068	1.2809338	251.8879	2.833213	-15.70997	4.684412	0.9162907	12.0	-1.671366	8.061487	-0.6997987	-1.309333	-1.383822	73	-0.7133499	-1.4294363	2.6654557	0.5598079	3.329165	1.4109870	-7.278819	1.398431	2.769220	1.0782394	6.108135	-2.918771	0.0953102	3.258097	-0.7329871	5.081404	3.218759	1.286356	3.593860	3.867347	-8.047190	-3.575551	1.916923	0.3364722	-0.3987186	0.0966859	2.9244660	1.675557	5.164786	-6.502290	-1.0827874	-1.153587	1.4586150	-1.9987562	-5.083206	6.444131	1.5303762	-1.714798	3.961111	2.639057	2.104602	-2.302585	-3.244194	-3.0000000	-1.4271164	4.727388	3.988984	5.099866	0.2523047	-2.971157	3.871201	2.995732	1.1631508	0.2623643	-1.710173	-2.259135	-0.8439701	-6.571283	-14.824999	1.520660	-0.3147107	-2.312635	5.129899	-5.449140	4.093428	3.091042	9.549474	10.96148	-0.7133499	-0.6826401	2.833213	-3.126226	-1.273376	-0.5577795	3.637051	-4.605170	-1.2729657	1.0296194	2.995732	-4.135167	2.397895	17.16420	-0.1508229	-4.199705	5.888878	4.191002	13.096997	Treatment	White	Divorced	72	101811.37	FALSE	FALSE
Impaired	0.9837662	1	E3E3	1.3012972	-1.7719568	-0.0201010	-6.165818	1.2527630	-14.54875	-3.324236	-204.12656	0.2623643	2.032084	-2.040221	-8.078938	-0.8439701	-5.557525	-2.2072749	-2.937463	1.3862944	1.3273591	-0.3200660	1.852753	-1.675252	-0.2744368	51	-6.119298	-1.4516659	-1.2378744	13.36229	2.3025851	288.5972	2.564949	-17.29007	3.779716	0.9555114	9.2	-1.610128	7.912057	-0.9763009	-3.244194	-1.363957	70	-0.5798185	-1.5586574	2.0734090	0.6237306	1.898718	1.1939225	-7.452483	1.372438	2.694190	1.1302068	6.108135	-3.772261	-0.0833816	2.833213	-0.5606761	5.411646	4.102821	1.274134	2.876338	5.731246	-7.849364	-4.509860	1.808289	0.0000000	0.4223589	-0.5321912	1.5642169	1.691393	5.062595	-7.035589	-1.5687868	-1.123868	0.5877867	-1.5373794	-3.540459	6.614726	1.6263611	-2.040221	3.409744	2.833213	3.265601	-2.040221	-3.015935	-4.3564173	0.1823216	4.442651	3.713572	4.955827	0.4905480	-2.713475	4.077537	2.944439	-0.1053605	0.3364722	-1.677510	-2.357788	-1.9661129	-6.645391	-18.014017	1.054607	-0.3285041	-3.381395	4.836282	-5.991465	4.037285	2.833213	10.097662	11.85641	-1.0498221	-0.6826401	2.890372	-3.123014	-1.451666	-0.8864471	2.791992	-3.816713	-1.7147984	0.5306283	2.639057	-4.422849	2.091864	14.19800	-0.4620355	-4.268698	5.064302	3.293130	11.275280	Control	White	Separated	70	67385.25	TRUE	TRUE
Control	0.9872935	0	E3E4	1.5206598	-1.7147984	0.1908902	-5.776353	1.3862944	-11.90988	-2.513306	-104.44595	0.6418539	2.064231	-1.560648	-7.208860	-0.4307829	-3.357973	-1.5606477	-2.563950	1.3350011	2.4440754	-0.2134747	1.673121	-2.062421	0.4054651	53	-5.083206	-1.0965412	0.2623643	24.38181	1.8870696	270.1389	2.890372	-12.13464	3.243492	0.9162907	15.0	-1.683772	8.692826	-0.6360404	-3.816713	-1.360233	67	-0.4462871	-0.8023293	3.8673473	1.5302036	3.019960	1.3862944	-6.991137	1.440955	2.924402	1.0495119	7.745463	-3.816713	0.5306283	2.944439	-0.1795552	5.209486	4.665910	1.269463	2.924466	5.427754	-7.264430	-4.074542	1.526056	0.0953102	0.4928027	0.0000000	1.0056222	1.760954	6.313548	-5.599423	-1.3405481	-1.172093	1.0647107	-1.5087252	-3.442019	6.744059	2.4440754	-2.040221	4.968453	2.833213	3.167927	-2.513306	-3.575551	-1.3806170	-1.6094379	4.691348	4.174387	5.023880	0.3200475	-2.841320	4.330733	2.772589	-0.3710637	0.0953102	-1.548336	-2.081112	-1.0498221	-6.214608	-16.954608	1.520660	-0.7550226	-2.577022	5.262690	-6.032286	3.752748	3.044522	10.008788	13.49193	-0.6161861	-0.5474623	2.890372	-3.100676	-1.273376	-1.0834849	4.534163	-3.816713	-1.2378744	1.0986123	2.995732	-3.963316	2.833213	15.95757	-0.0943107	-3.442019	5.808142	4.138377	11.837189	Control	Hispanic	Separated	64	22513.01	FALSE	FALSE
Control	0.9875000	0	E3E3	1.5618560	-1.5606477	0.5298221	-6.074846	0.8754687	-14.00645	-3.194183	-125.75495	0.7419373	2.254789	-2.302585	-7.902008	-1.0216512	-5.357143	-1.8971200	-2.830218	1.1631508	3.1856203	-0.5174908	1.274012	-2.648659	0.4054651	46	-5.713833	-1.0699846	-0.0408220	27.32576	3.0910425	411.6762	3.135494	-14.84936	2.515220	0.5877867	11.0	-1.590122	8.993427	-0.5606761	-4.199705	-1.367775	36	-0.5276327	-1.5047321	0.2880017	2.3788658	4.292853	0.9932518	-7.799353	1.372438	2.686183	0.6762264	6.559746	-3.540459	0.4700036	3.135494	-0.3573878	5.135798	4.518270	1.289931	2.810280	4.802628	-7.684284	-3.575551	2.041220	0.6931472	-0.5634790	-0.1586207	3.7055056	1.687652	4.753590	-5.599423	-0.9005739	-1.206511	1.3083328	-1.3613474	-4.866535	6.406880	0.4005958	-1.966113	2.276075	2.484907	4.049508	-2.040221	-3.036554	-3.3452248	-1.8971200	4.605170	4.753590	5.231109	0.4905480	-3.151839	3.850148	2.890372	0.2623643	0.0000000	-1.690161	-2.703457	-1.9661129	-6.571283	-16.025282	1.206356	-0.3285041	-3.244194	5.638355	-6.645391	4.370576	3.637586	10.777165	12.14214	-0.2744368	-0.5474623	2.708050	-3.162501	-1.491998	-0.6288691	4.315607	-4.017384	-1.8325815	1.6292405	3.044522	-3.772261	2.484907	17.69642	-0.2744368	-3.442019	6.251904	4.515661	12.237348	Control	Asian	Separated	70	51512.09	FALSE	FALSE

Kuhn and Johnson (2018)

Variable Types

VariableTypes<- CreateVariableTypesTemplate(AlzheimersData)

Variable Types

VariableTypes<- CreateVariableTypesTemplate(AlzheimersData)

Variable	Label	Type	Category	Recode	Code	Notes	Exclude	Subcategory	Include
Diagnosis	Diagnosis	Categorical	NA	NA	NA	NA	NA	NA	1
age	Age	Double	NA	NA	NA	NA	NA	NA	1
sex	Sex	Categorical	NA	yes	0 = Female; 1 = Male	NA	NA	NA	1
Group	Group	Categorical	NA	NA	NA	NA	NA	NA	NA
Race	Race	Categorical	NA	NA	NA	NA	NA	NA	NA
Marital	Marital Status	Categorical	NA	NA	NA	NA	NA	NA	NA
Height	Height	Double	NA	NA	NA	NA	NA	NA	NA
Income	Income	Double	NA	NA	NA	NA	NA	NA	NA
Smokes	Smokes	Categorical	NA	NA	NA	NA	NA	NA	NA
Smoker	Smoker	Categorical	NA	NA	NA	NA	NA	NA	NA
Genotype	Genotype	Categorical	NA	NA	NA	NA	NA	NA	1
ACE_CD143_Angiotensin_Converti	Angiotensin-converting enzyme	Double	Lab Measures	NA	NA	NA	NA	Proteolytic enzyme	NA
ACTH_Adrenocorticotropic_Hormon	Adrenocorticotropic hormone	Double	Lab Measures	NA	NA	NA	NA	Hormone	NA
AXL	AXL receptor tyrosine kinase	Double	Lab Measures	NA	NA	NA	NA	Receptor	NA
Adiponectin	Adiponectin	Double	Lab Measures	NA	NA	NA	NA	Hormone	NA

Revalue Data

Data_Revalued <- RevalueData(AlzheimersData, VariableTypes)
df_Alzheimers <- Data_Revalued$RevaluedData
FormattedDataDictionary(df_Alzheimers)

Variable	Label	Type	Ordered Factor	n_missing	complete_rate	n_unique	Top Counts	Mean	Median	SD	Min	Max	Histogram
Diagnosis	Diagnosis	factor	FALSE	0	1		Con: 242, Imp: 91
age	Age	numeric		0	1	181		0.99	0.99	0	0.98	0.99	▅▇▇▆▁
sex	Sex	factor	FALSE	0	1		Fem: 204, Mal: 129
Genotype	Genotype	factor	FALSE	0	1		E3E: 167, E3E: 106, E2E: 37, E4E: 13
ACE_CD143_Angiotensin_Converti	Angiotensin-converting enzyme	numeric		0	1	56		1.32	1.3	0.55	-0.68	3.09	▁▃▇▅▁
ACTH_Adrenocorticotropic_Hormon	Adrenocorticotropic hormone	numeric		0	1	33		-1.54	-1.56	0.27	-2.21	-0.8	▂▆▇▅▁
AXL	AXL receptor tyrosine kinase	numeric		0	1	64		0.3	0.28	0.45	-0.92	1.52	▁▅▇▃▁
Adiponectin	Adiponectin	numeric		0	1	96		-5.22	-5.22	0.67	-7.06	-3.47	▁▅▇▅▁
Alpha_1_Antichymotrypsin	Alpha-1-antichymotrypsin	numeric		0	1	70		1.35	1.36	0.36	0.18	2.3	▁▃▇▆▂
Alpha_1_Antitrypsin	Alpha-1-antitrypsin	numeric		0	1	69		-13.14	-13.1	1.55	-18.17	-8.19	▁▃▇▃▁
Alpha_1_Microglobulin	Alpha-1-microglobulin	numeric		0	1	87		-2.94	-2.96	0.48	-4.34	-1.77	▁▅▇▇▂
Alpha_2_Macroglobulin	Alpha-2-macroglobulin	numeric		0	1	49		-159.46	-160.01	40.92	-289.68	-50.17	▁▃▇▅▂
Angiopoietin_2_ANG_2	Angiopoietin-2	numeric		0	1	38		0.66	0.64	0.33	-0.54	1.77	▁▂▇▃▁
Angiotensinogen	Angiotensinogen	numeric		0	1	144		2.31	2.31	0.25	1.71	2.88	▂▆▇▇▂
Apolipoprotein_A_IV	Apolipoprotein A-IV	numeric		0	1	58		-1.86	-1.83	0.38	-2.96	-0.78	▁▅▇▅▁
Apolipoprotein_A1	Apolipoprotein A-1	numeric		0	1	86		-7.48	-7.47	0.44	-8.68	-6.17	▁▅▇▃▁
Apolipoprotein_A2	Apolipoprotein A-2	numeric		0	1	88		-0.65	-0.69	0.49	-1.97	0.96	▁▇▇▃▁
Apolipoprotein_B	Apolipoprotein B	numeric		0	1	88		-5.59	-5.7	1.45	-9.94	-2.15	▁▅▇▇▂
Apolipoprotein_CI	Apolipoprotein C-I	numeric		0	1	56		-1.59	-1.61	0.42	-3.32	-0.27	▁▁▇▅▁
Apolipoprotein_CIII	Apolipoprotein C-III	numeric		0	1	85		-2.5	-2.54	0.44	-3.86	-1.24	▁▃▇▃▁
Apolipoprotein_D	Apolipoprotein D	numeric		0	1	70		1.43	1.41	0.35	0.26	2.64	▁▅▇▃▁
Apolipoprotein_E	Apolipoprotein E	numeric		0	1	84		2.79	2.82	0.8	0.59	5.44	▁▅▇▂▁
Apolipoprotein_H	Apolipoprotein H	numeric		0	1	85		-0.32	-0.36	0.38	-2.23	0.93	▁▁▇▆▁
B_Lymphocyte_Chemoattractant_BL	B-lymphocyte chemoattractant	numeric		0	1	37		1.99	1.98	0.57	0.73	4.02	▃▇▇▁▁
BMP_6	Bone morphogenetic protein 6	numeric		0	1	43		-1.92	-1.89	0.32	-2.76	-0.82	▁▅▇▂▁
Beta_2_Microglobulin	Beta-2-microglobulin	numeric		0	1	55		0.17	0.18	0.3	-0.54	0.99	▂▅▇▃▁
Betacellulin	Betacellulin	numeric		0	1	38		51.35	51	10.82	10	82	▁▁▇▅▁
C_Reactive_Protein	C-reactive protein	numeric		0	1	143		-5.9	-5.91	1.19	-8.52	-2.94	▃▆▇▅▂
CD40	CD40	numeric		0	1	39		-1.26	-1.27	0.22	-1.94	-0.55	▁▃▇▃▁
CD5L	CD5L	numeric		0	1	85		-0.06	-0.06	0.46	-1.97	1.16	▁▁▇▇▂
Calbindin	Calbindin	numeric		0	1	158		22.25	22.08	4.2	10.81	35.36	▁▅▇▃▁
Calcitonin	Calcitonin	numeric		0	1	99		1.69	1.65	0.88	-0.71	4.11	▁▆▇▅▁
CgA	Chromogranin A	numeric		0	1	109		330.71	328.81	82.13	135.6	535.4	▂▅▇▅▂
Clusterin_Apo_J	Clusterin (ApoJ)	numeric		0	1	37		2.88	2.89	0.3	1.87	3.76	▁▂▇▃▁
Complement_3	Complement component 3	numeric		0	1	68		-15.67	-15.71	2.49	-23.39	-9.56	▁▆▇▇▂
Complement_Factor_H	Complement factor H	numeric		0	1	93		3.52	3.57	1.25	-0.84	7.62	▁▃▇▅▁
Connective_Tissue_Growth_Factor	Connective tissue growth factor	numeric		0	1	27		0.77	0.79	0.21	0.1	1.41	▁▃▇▃▁
Cortisol	Cortisol	numeric		0	1	62		11.68	12	3.97	0.1	29	▁▇▇▁▁
Creatine_Kinase_MB	Creatine kinase-MB	numeric		0	1	36		-1.67	-1.67	0.09	-1.87	-1.38	▂▅▇▂▁
Cystatin_C	Cystatin C	numeric		0	1	253		8.58	8.56	0.4	7.43	9.69	▁▅▇▅▁
EGF_R	Epidermal growth factor receptor	numeric		0	1	62		-0.7	-0.68	0.23	-1.36	0.19	▁▆▇▂▁
EN_RAGE	EN-RAGE (extracellular newly identified RAGE-binding protein)	numeric		0	1	102		-3.63	-3.65	0.9	-8.38	-0.39	▁▁▇▆▁
ENA_78	ENA-78 (epithelial-derived neutrophil-activating protein 78)	numeric		0	1	40		-1.37	-1.37	0.01	-1.41	-1.34	▁▅▇▅▁
Eotaxin_3	Eotaxin-3	numeric		0	1	44		57.65	57	16.36	7	107	▁▆▇▅▁
FAS	Fas (tumor necrosis factor receptor superfamily member 6)	numeric		0	1	54		-0.53	-0.53	0.3	-1.51	0.34	▁▃▇▆▁
FSH_Follicle_Stimulation_Hormon	Follicle-stimulating hormone	numeric		0	1	102		-1.13	-1.11	0.4	-2.12	0.1	▂▆▇▃▁
Fas_Ligand	Fas ligand	numeric		0	1	63		2.9	2.85	1.08	-0.15	7.63	▂▇▇▁▁
Fatty_Acid_Binding_Protein	Fatty acid-binding protein	numeric		0	1	92		1.34	1.31	0.78	-1.04	3.71	▁▅▇▅▁
Ferritin	Ferritin	numeric		0	1	79		2.75	2.73	0.78	0.61	4.93	▁▃▇▅▁
Fetuin_A	Fetuin-A	numeric		0	1	70		1.34	1.31	0.38	0.47	2.25	▂▆▇▅▂
Fibrinogen	Fibrinogen	numeric		0	1	97		-7.36	-7.32	0.58	-9.37	-5.84	▁▂▇▆▂
GRO_alpha	Growth-regulated alpha protein	numeric		0	1	27		1.38	1.38	0.04	1.27	1.51	▂▆▇▂▁
Gamma_Interferon_induced_Monokin	Gamma interferon-induced monokine	numeric		0	1	246		2.78	2.78	0.11	2.39	3.07	▁▂▇▆▂
Glutathione_S_Transferase_alpha	Glutathione S-transferase alpha	numeric		0	1	43		0.95	0.97	0.16	0.52	1.32	▁▃▇▆▂
HB_EGF	Heparin-binding epidermal growth factor	numeric		0	1	56		6.84	6.7	1.49	2.1	10.7	▁▃▇▆▂
HCC_4	HCC-4 (hemofiltrate CC chemokine-4)	numeric		0	1	56		-3.51	-3.54	0.36	-4.51	-2.12	▁▇▇▂▁
Hepatocyte_Growth_Factor_HGF	Hepatocyte growth factor	numeric		0	1	53		0.19	0.18	0.3	-0.63	1.1	▁▅▇▅▁
I_309	I-309 (TCA-3)	numeric		0	1	48		2.95	2.94	0.37	1.76	4.14	▁▅▇▃▁
ICAM_1	Intercellular adhesion molecule 1	numeric		0	1	70		-0.59	-0.59	0.33	-1.53	0.52	▁▅▇▃▁
IGF_BP_2	Insulin-like growth factor-binding protein 2	numeric		0	1	141		5.31	5.3	0.21	4.63	5.95	▁▅▇▅▁
IL_11	Interleukin 11	numeric		0	1	78		4.71	4.81	1.42	1.75	8.69	▃▆▇▃▁
IL_13	Interleukin 13	numeric		0	1	20		1.28	1.28	0.01	1.23	1.32	▁▁▇▆▁
IL_16	Interleukin 16	numeric		0	1	59		2.91	2.88	0.67	0.96	4.94	▁▅▇▅▁
IL_17E	Interleukin 17E	numeric		0	1	47		4.84	4.75	1.33	1.05	8.95	▁▆▇▃▁
IL_1alpha	Interleukin 1 alpha	numeric		0	1	65		-7.52	-7.54	0.4	-8.52	-5.95	▂▇▇▂▁
IL_3	Interleukin 3	numeric		0	1	64		-3.95	-3.91	0.51	-5.91	-2.45	▁▂▇▆▁
IL_4	Interleukin 4	numeric		0	1	49		1.77	1.81	0.51	0.53	3.04	▂▆▇▅▂
IL_5	Interleukin 5	numeric		0	1	50		0.19	0.18	0.45	-1.43	1.95	▁▃▇▂▁
IL_6	Interleukin 6	numeric		0	1	55		-0.13	-0.09	0.55	-1.53	1.81	▂▆▇▂▁
IL_6_Receptor	Interleukin 6 receptor	numeric		0	1	58		0.09	0.1	0.32	-0.75	0.83	▁▅▇▆▂
IL_7	Interleukin 7	numeric		0	1	48		2.9	2.92	1.02	0.56	5.71	▃▇▇▆▁
IL_8	Interleukin 8	numeric		0	1	59		1.7	1.71	0.04	1.57	1.84	▁▃▇▃▁
IP_10_Inducible_Protein_10	Inducible protein 10	numeric		0	1	249		5.73	5.72	0.51	4.26	7.5	▁▆▇▂▁
IgA	Immunoglobulin A	numeric		0	1	101		-6.11	-6.12	0.74	-10.52	-4.2	▁▁▂▇▂
Insulin	Insulin	numeric		0	1	58		-1.23	-1.25	0.34	-2.17	-0.16	▁▃▇▂▁
Kidney_Injury_Molecule_1_KIM_1	Kidney injury molecule 1	numeric		0	1	51		-1.19	-1.18	0.03	-1.26	-1.1	▂▆▇▅▁
LOX_1	Lectin-like oxidized LDL receptor 1	numeric		0	1	72		1.27	1.25	0.41	0	2.4	▁▃▇▃▁
Leptin	Leptin	numeric		0	1	91		-1.49	-1.47	0.27	-2.15	-0.62	▂▇▇▂▁
Lipoprotein_a	Lipoprotein(a)	numeric		0	1	138		-4.44	-4.63	1.07	-6.81	-1.39	▂▇▅▅▁
MCP_1	Monocyte chemoattractant protein 1	numeric		0	1	258		6.49	6.49	0.26	5.83	7.23	▂▅▇▅▁
MCP_2	Monocyte chemoattractant protein 2	numeric		0	1	43		1.86	1.85	0.64	0.4	4.02	▂▆▇▂▁
MIF	Macrophage migration inhibitory factor	numeric		0	1	47		-1.88	-1.9	0.33	-2.85	-0.84	▁▃▇▃▁
MIP_1alpha	Macrophage inflammatory protein 1 alpha	numeric		0	1	53		4.02	3.96	1.01	0.93	6.8	▁▅▇▅▂
MIP_1beta	Macrophage inflammatory protein 1 beta	numeric		0	1	53		2.81	2.83	0.38	1.92	4.01	▂▆▇▃▁
MMP_2	Matrix metalloproteinase 2	numeric		0	1	50		2.91	2.97	0.94	0.1	6.1	▁▅▇▃▁
MMP_3	Matrix metalloproteinase 3	numeric		0	1	83		-2.45	-2.48	0.58	-4.42	-0.53	▁▂▇▃▁
MMP10	Matrix metalloproteinase 10	numeric		0	1	58		-3.64	-3.61	0.43	-4.95	-2.21	▁▆▇▃▁
MMP7	Matrix metalloproteinase 7	numeric		0	1	95		-3.83	-3.77	1.55	-8.4	-0.2	▁▃▇▅▂
Myoglobin	Myoglobin	numeric		0	1	129		-1.38	-1.47	0.94	-3.3	1.77	▃▇▆▂▁
NT_proBNP	N-terminal pro b-type natriuretic peptide	numeric		0	1	129		4.54	4.54	0.38	3.18	5.89	▁▂▇▃▁
NrCAM	Neuron-glia cell adhesion molecule	numeric		0	1	140		4.35	4.37	0.57	2.64	6.01	▁▃▇▅▁
Osteopontin	Osteopontin	numeric		0	1	186		5.2	5.19	0.39	4.08	6.32	▁▅▇▃▁
PAI_1	Plasminogen activator inhibitor 1	numeric		0	1	75		0.06	0.09	0.42	-0.99	1.17	▂▅▇▅▁
PAPP_A	Pregnancy-associated plasma protein A	numeric		0	1	36		-2.85	-2.87	0.14	-3.31	-2.49	▁▂▇▆▂
PLGF	Placental growth factor	numeric		0	1	91		3.91	3.87	0.4	2.48	5.17	▁▃▇▅▁
PYY	Peptide YY	numeric		0	1	35		3.01	3	0.29	2.19	3.93	▁▅▇▂▁
Pancreatic_polypeptide	Pancreatic polypeptide	numeric		0	1	90		-0.01	-0.01	0.72	-2.12	1.93	▁▅▇▆▁
Prolactin	Prolactin	numeric		0	1	61		0.05	0	0.3	-1.31	0.99	▁▁▇▇▁
Prostatic_Acid_Phosphatase	Prostatic acid phosphatase	numeric		0	1	45		-1.69	-1.69	0.06	-1.93	-1.42	▁▂▇▂▁
Protein_S	Protein S	numeric		0	1	24		-2.25	-2.26	0.36	-3.34	-1.22	▁▃▇▃▁
Pulmonary_and_Activation_Regulat	Pulmonary and activation-regulated chemokine	numeric		0	1	58		-1.49	-1.51	0.45	-2.51	-0.27	▂▇▇▃▁
RANTES	Regulated on activation, normal T cell expressed and secreted	numeric		0	1	44		-6.52	-6.5	0.32	-7.24	-5.55	▃▇▇▃▁
Resistin	Resistin	numeric		0	1	63		-17.76	-17.47	5.69	-34.97	-2.24	▁▃▇▆▁
S100b	S100 calcium-binding protein B	numeric		0	1	36		1.24	1.21	0.35	0.19	2.37	▁▆▇▅▁
SGOT	Serum glutamic-oxaloacetic transaminase	numeric		0	1	79		-0.42	-0.4	0.35	-1.9	0.74	▁▂▇▅▁
SHBG	Sex hormone-binding globulin	numeric		0	1	99		-2.52	-2.51	0.57	-4.14	-1.11	▁▃▇▆▂
SOD	Superoxide dismutase	numeric		0	1	187		5.33	5.35	0.38	4.32	6.46	▁▅▇▃▁
Serum_Amyloid_P	Serum amyloid P component	numeric		0	1	77		-6.03	-6.03	0.55	-7.51	-4.65	▁▅▇▅▂
Sortilin	Sortilin	numeric		0	1	67		3.84	3.87	0.87	1.51	6.23	▁▅▇▃▁
Stem_Cell_Factor	Stem cell factor	numeric		0	1	47		3.29	3.3	0.36	2.22	4.28	▁▃▇▅▁
TGF_alpha	Transforming growth factor alpha	numeric		0	1	64		9.8	9.83	1.28	6.84	13.83	▂▆▇▂▁
TIMP_1	Tissue inhibitor of metalloproteinases 1	numeric		0	1	57		11.7	11.56	1.85	1.74	18.88	▁▁▇▅▁
TNF_RII	Tumor necrosis factor receptor II	numeric		0	1	79		-0.6	-0.6	0.34	-1.66	0.47	▁▅▇▃▁
TRAIL_R3	TNF-related apoptosis-inducing ligand receptor 3	numeric		0	1	63		-0.55	-0.55	0.24	-1.31	0.27	▁▅▇▃▁
TTR_prealbumin	Transthyretin (prealbumin)	numeric		0	1	16		2.85	2.83	0.14	2.48	3.33	▂▅▇▃▁
Tamm_Horsfall_Protein_THP	Tamm-Horsfall protein	numeric		0	1	63		-3.12	-3.12	0.03	-3.21	-2.99	▂▇▇▂▁
Thrombomodulin	Thrombomodulin	numeric		0	1	38		-1.51	-1.49	0.23	-2.05	-0.82	▂▇▇▅▁
Thrombopoietin	Thrombopoietin	numeric		0	1	58		-0.75	-0.74	0.24	-1.54	0.1	▁▅▇▂▁
Thymus_Expressed_Chemokine_TECK	Thymus-expressed chemokine (TECK)	numeric		0	1	41		3.83	3.81	0.79	1.51	6.23	▁▅▇▃▁
Thyroid_Stimulating_Hormone	Thyroid-stimulating hormone	numeric		0	1	72		-4.44	-4.42	0.77	-6.19	-1.71	▂▇▇▂▁
Thyroxine_Binding_Globulin	Thyroxine-binding globulin	numeric		0	1	51		-1.48	-1.51	0.4	-2.48	-0.21	▂▆▇▃▁
Tissue_Factor	Tissue factor	numeric		0	1	71		1.16	1.19	0.51	-0.21	2.71	▁▅▇▃▁
Transferrin	Transferrin	numeric		0	1	31		2.91	2.89	0.28	1.93	3.76	▁▃▇▅▁
Trefoil_Factor_3_TFF3	Trefoil factor 3 (TFF3)	numeric		0	1	40		-3.89	-3.91	0.34	-4.91	-2.96	▁▅▇▆▁
VCAM_1	Vascular cell adhesion molecule 1	numeric		0	1	45		2.68	2.71	0.32	1.72	3.69	▁▃▇▃▁
VEGF	Vascular endothelial growth factor	numeric		0	1	238		16.93	17.08	1.87	11.83	22.38	▁▅▇▃▁
Vitronectin	Vitronectin	numeric		0	1	75		-0.28	-0.29	0.33	-1.43	0.53	▁▂▇▇▂
von_Willebrand_Factor	von Willebrand factor	numeric		0	1	46		-3.93	-3.91	0.38	-4.99	-2.96	▁▅▇▆▂
tau	Tau protein	numeric		0	1	333		5.78	5.75	0.56	4.54	7.17	▃▇▇▆▂
p_tau	Phosphorylated tau protein	numeric		0	1	331		4.04	4.04	0.46	2.96	5.47	▂▇▇▃▁
Ab_42	Amyloid beta 42	numeric		0	1	333		12.41	12.45	1.57	8.88	15.96	▃▆▇▇▂
Group	Group	factor	FALSE	0	1		Con: 172, Tre: 161
Race	Race	factor	FALSE	0	1		Whi: 220, His: 54, Bla: 43, Asi: 11
Marital	Marital Status	factor	FALSE	0	1		Sep: 79, Wid: 69, Mar: 65, Div: 62
Height	Height	numeric		0	1	21		68.95	69	3.88	57	80	▁▅▇▇▁
Income	Income	numeric		0	1	333		39090.94	32807.56	26478.78	412.65	213403.39	▇▃▁▁▁
Smokes	Smokes	factor	FALSE	0	1		FAL: 272, TRU: 61
Smoker	Smoker	factor	FALSE	0	1		FAL: 169, TRU: 164
Data Frame had 333 rows and 138 columns
Color indicates type of variable

Lüdecke (2022) Arslan (2019) Waring et al. (2022) Iannone et al. (2024a)

Data Missingness

PlotMissingData(df_Alzheimers, Relabel = TRUE)

Tierney and Cook (2023)

Table 1

MakeTable1(df_Alzheimers, TreatOrdinalAs = "Continuous")%>% 
  gtsummary::as_gt() %>%
gt::tab_options(container.height =400)

Characteristic	N = 333¹
Diagnosis
Control	242 (73%)
Impaired	91 (27%)
Age	0.9861 (0.0014)
Sex
Female	204 (61%)
Male	129 (39%)
Genotype
E2E2	2 (0.6%)
E2E3	37 (11%)
E2E4	8 (2.4%)
E3E3	167 (50%)
E3E4	106 (32%)
E4E4	13 (3.9%)
Angiotensin-converting enzyme	1.32 (0.55)
Adrenocorticotropic hormone	-1.54 (0.27)
AXL receptor tyrosine kinase	0.30 (0.45)
Adiponectin	-5.22 (0.67)
Alpha-1-antichymotrypsin	1.34 (0.36)
Unknown	100
Alpha-1-antitrypsin	-13.14 (1.55)
Alpha-1-microglobulin	-2.94 (0.48)
Alpha-2-macroglobulin	-159 (41)
Angiopoietin-2	0.66 (0.33)
Angiotensinogen	2.33 (0.25)
Unknown	100
Apolipoprotein A-IV	-1.86 (0.38)
Apolipoprotein A-1	-7.48 (0.44)
Apolipoprotein A-2	-0.65 (0.49)
Apolipoprotein B	-5.59 (1.45)
Apolipoprotein C-I	-1.59 (0.42)
Apolipoprotein C-III	-2.50 (0.44)
Apolipoprotein D	1.43 (0.35)
Apolipoprotein E	2.79 (0.80)
Apolipoprotein H	-0.32 (0.38)
B-lymphocyte chemoattractant	1.99 (0.57)
Bone morphogenetic protein 6	-1.92 (0.32)
Beta-2-microglobulin	0.17 (0.30)
Betacellulin	51 (11)
C-reactive protein	-5.90 (1.19)
CD40	-1.26 (0.22)
CD5L	-0.06 (0.46)
Calbindin	22.2 (4.2)
Calcitonin	1.69 (0.88)
Chromogranin A	331 (82)
Clusterin (ApoJ)	2.88 (0.30)
Complement component 3	-15.67 (2.49)
Complement factor H	3.52 (1.25)
Connective tissue growth factor	0.77 (0.21)
Cortisol	11.7 (4.0)
Creatine kinase-MB	-1.67 (0.09)
Cystatin C	8.58 (0.40)
Epidermal growth factor receptor	-0.70 (0.23)
EN-RAGE (extracellular newly identified RAGE-binding protein)	-3.63 (0.90)
ENA-78 (epithelial-derived neutrophil-activating protein 78)	-1.373 (0.013)
Unknown	100
Eotaxin-3	58 (16)
Fas (tumor necrosis factor receptor superfamily member 6)	-0.53 (0.30)
Follicle-stimulating hormone	-1.13 (0.40)
Fas ligand	2.90 (1.08)
Fatty acid-binding protein	1.34 (0.78)
Ferritin	2.75 (0.78)
Fetuin-A	1.35 (0.38)
Unknown	100
Fibrinogen	-7.36 (0.58)
Growth-regulated alpha protein	1.38 (0.04)
Gamma interferon-induced monokine	2.78 (0.11)
Glutathione S-transferase alpha	0.95 (0.16)
Heparin-binding epidermal growth factor	6.84 (1.49)
HCC-4 (hemofiltrate CC chemokine-4)	-3.51 (0.36)
Hepatocyte growth factor	0.19 (0.30)
I-309 (TCA-3)	2.95 (0.37)
Intercellular adhesion molecule 1	-0.59 (0.33)
Insulin-like growth factor-binding protein 2	5.31 (0.21)
Interleukin 11	4.71 (1.42)
Interleukin 13	1.284 (0.011)
Interleukin 16	2.91 (0.67)
Interleukin 17E	4.84 (1.33)
Interleukin 1 alpha	-7.52 (0.40)
Interleukin 3	-3.95 (0.51)
Interleukin 4	1.77 (0.51)
Interleukin 5	0.19 (0.45)
Interleukin 6	-0.13 (0.55)
Interleukin 6 receptor	0.09 (0.32)
Interleukin 7	2.90 (1.02)
Interleukin 8	1.70 (0.04)
Inducible protein 10	5.73 (0.51)
Immunoglobulin A	-6.11 (0.74)
Insulin	-1.23 (0.34)
Kidney injury molecule 1	-1.185 (0.028)
Lectin-like oxidized LDL receptor 1	1.27 (0.41)
Leptin	-1.49 (0.27)
Lipoprotein(a)	-4.44 (1.07)
Monocyte chemoattractant protein 1	6.49 (0.26)
Monocyte chemoattractant protein 2	1.86 (0.64)
Macrophage migration inhibitory factor	-1.88 (0.33)
Macrophage inflammatory protein 1 alpha	4.02 (1.01)
Macrophage inflammatory protein 1 beta	2.81 (0.38)
Matrix metalloproteinase 2	2.91 (0.94)
Matrix metalloproteinase 3	-2.45 (0.58)
Matrix metalloproteinase 10	-3.64 (0.43)
Matrix metalloproteinase 7	-3.83 (1.55)
Myoglobin	-1.38 (0.94)
N-terminal pro b-type natriuretic peptide	4.56 (0.38)
Unknown	100
Neuron-glia cell adhesion molecule	4.34 (0.54)
Unknown	100
Osteopontin	5.19 (0.40)
Unknown	100
Plasminogen activator inhibitor 1	0.07 (0.43)
Unknown	100
Pregnancy-associated plasma protein A	-2.85 (0.14)
Placental growth factor	3.91 (0.40)
Peptide YY	3.01 (0.29)
Pancreatic polypeptide	-0.01 (0.72)
Prolactin	0.05 (0.30)
Prostatic acid phosphatase	-1.68 (0.06)
Unknown	100
Protein S	-2.25 (0.36)
Pulmonary and activation-regulated chemokine	-1.49 (0.45)
Regulated on activation, normal T cell expressed and secreted	-6.52 (0.32)
Resistin	-17.8 (5.7)
S100 calcium-binding protein B	1.24 (0.35)
Serum glutamic-oxaloacetic transaminase	-0.42 (0.35)
Sex hormone-binding globulin	-2.52 (0.57)
Superoxide dismutase	5.33 (0.38)
Serum amyloid P component	-6.03 (0.55)
Sortilin	3.84 (0.87)
Stem cell factor	3.29 (0.36)
Transforming growth factor alpha	9.80 (1.28)
Tissue inhibitor of metalloproteinases 1	11.70 (1.85)
Tumor necrosis factor receptor II	-0.60 (0.34)
TNF-related apoptosis-inducing ligand receptor 3	-0.55 (0.24)
Transthyretin (prealbumin)	2.85 (0.14)
Tamm-Horsfall protein	-3.12 (0.03)
Thrombomodulin	-1.51 (0.23)
Thrombopoietin	-0.76 (0.25)
Unknown	100
Thymus-expressed chemokine (TECK)	3.83 (0.79)
Thyroid-stimulating hormone	-4.44 (0.77)
Thyroxine-binding globulin	-1.46 (0.41)
Unknown	100
Tissue factor	1.16 (0.51)
Transferrin	2.91 (0.28)
Trefoil factor 3 (TFF3)	-3.89 (0.34)
Vascular cell adhesion molecule 1	2.68 (0.32)
Vascular endothelial growth factor	16.93 (1.87)
Vitronectin	-0.28 (0.33)
von Willebrand factor	-3.93 (0.38)
Tau protein	5.78 (0.56)
Phosphorylated tau protein	4.04 (0.46)
Amyloid beta 42	12.41 (1.55)
Unknown	100
Group
Control	172 (52%)
Treatment	161 (48%)
Race
Asian	11 (3.3%)
Bi-Racial	5 (1.5%)
Black	43 (13%)
Hispanic	54 (16%)
White	220 (66%)
Marital Status
Divorced	62 (19%)
Married	65 (20%)
Never Married	58 (17%)
Separated	79 (24%)
Widowed	69 (21%)
Height	69.0 (3.9)
Income	40,643 (28,273)
Unknown	100
Smokes
FALSE	272 (82%)
TRUE	61 (18%)
Smoker
FALSE	117 (50%)
TRUE	116 (50%)
Unknown	100
¹ n (%); Mean (SD)

Sjoberg et al. (2021) Iannone et al. (2024b)

Continuous Data Distributions

vars_Continuous <- getNumVars(df_Alzheimers, Ordinal = F)
CreateSummaryTable(df_Alzheimers, vars_Continuous, Relabel = T)

Descriptive Summary Table. IQR, Skewness, and Kurtosis are highlighted in yellow if they are indicative of a non-normal distribution. Pct.Valid is highlighted in red if over 30% of data is missing
	Variable	label	Mean	Std.Dev	Median	IQR	Min	Max	Skewness	Kurtosis	N.Valid	Pct.Valid
1	age	Age	0.99	0.00	0.99	0	0.98	0.99	0.04	-0.77	333	100
2	ACE_CD143_Angiotensin_Converti	Angiotensin-converting enzyme	1.32	0.55	1.30	0.77	-0.68	3.09	-0.05	0.35	333	100
3	ACTH_Adrenocorticotropic_Hormon	Adrenocorticotropic hormone	-1.54	0.27	-1.56	0.37	-2.21	-0.80	0.03	-0.16	333	100
4	AXL	AXL receptor tyrosine kinase	0.30	0.45	0.28	0.62	-0.92	1.52	0.01	-0.24	333	100
5	Adiponectin	Adiponectin	-5.22	0.67	-5.22	0.86	-7.06	-3.47	0.14	-0.21	333	100
6	Alpha_1_Antichymotrypsin	Alpha-1-antichymotrypsin	1.34	0.36	1.36	0.45	0.26	2.30	0.06	0.13	233	69.97
7	Alpha_1_Antitrypsin	Alpha-1-antitrypsin	-13.14	1.55	-13.10	2	-18.17	-8.19	0	0.48	333	100
8	Alpha_1_Microglobulin	Alpha-1-microglobulin	-2.94	0.48	-2.96	0.65	-4.34	-1.77	0	-0.3	333	100
9	Alpha_2_Macroglobulin	Alpha-2-macroglobulin	-159.46	40.92	-160.01	50.11	-289.68	-50.17	0	-0.04	333	100
10	Angiopoietin_2_ANG_2	Angiopoietin-2	0.66	0.33	0.64	0.41	-0.54	1.77	0.03	0.58	333	100
11	Angiotensinogen	Angiotensinogen	2.33	0.25	2.33	0.34	1.71	2.88	-0.04	-0.53	233	69.97
12	Apolipoprotein_A_IV	Apolipoprotein A-IV	-1.86	0.38	-1.83	0.51	-2.96	-0.78	0.02	-0.15	333	100
13	Apolipoprotein_A1	Apolipoprotein A-1	-7.48	0.44	-7.47	0.58	-8.68	-6.17	-0.02	0	333	100
14	Apolipoprotein_A2	Apolipoprotein A-2	-0.65	0.49	-0.69	0.64	-1.97	0.96	0.22	-0.01	333	100
15	Apolipoprotein_B	Apolipoprotein B	-5.59	1.45	-5.70	2.05	-9.94	-2.15	0.03	-0.29	333	100
16	Apolipoprotein_CI	Apolipoprotein C-I	-1.59	0.42	-1.61	0.49	-3.32	-0.27	0.01	1.13	333	100
17	Apolipoprotein_CIII	Apolipoprotein C-III	-2.50	0.44	-2.54	0.57	-3.86	-1.24	0.2	0.26	333	100
18	Apolipoprotein_D	Apolipoprotein D	1.43	0.35	1.41	0.49	0.26	2.64	0.04	0.04	333	100
19	Apolipoprotein_E	Apolipoprotein E	2.79	0.80	2.82	0.98	0.59	5.44	0	0.16	333	100
20	Apolipoprotein_H	Apolipoprotein H	-0.32	0.38	-0.36	0.49	-2.23	0.93	0.09	1.71	333	100
21	B_Lymphocyte_Chemoattractant_BL	B-lymphocyte chemoattractant	1.99	0.57	1.98	0.7	0.73	4.02	0.03	0.19	333	100
22	BMP_6	Bone morphogenetic protein 6	-1.92	0.32	-1.89	0.48	-2.76	-0.82	-0.04	0.43	333	100
23	Beta_2_Microglobulin	Beta-2-microglobulin	0.17	0.30	0.18	0.39	-0.54	0.99	0	-0.22	333	100
24	Betacellulin	Betacellulin	51.35	10.82	51.00	16	10.00	82.00	0.04	0.39	333	100
25	C_Reactive_Protein	C-reactive protein	-5.90	1.19	-5.91	1.55	-8.52	-2.94	0.09	-0.5	333	100
26	CD40	CD40	-1.26	0.22	-1.27	0.25	-1.94	-0.55	-0.01	0.41	333	100
27	CD5L	CD5L	-0.06	0.46	-0.06	0.62	-1.97	1.16	-0.16	0.57	333	100
28	Calbindin	Calbindin	22.25	4.20	22.08	4.96	10.81	35.36	0.03	0.25	333	100
29	Calcitonin	Calcitonin	1.69	0.88	1.65	1.18	-0.71	4.11	0.11	-0.18	333	100
30	CgA	Chromogranin A	330.71	82.13	328.81	108.47	135.60	535.40	-0.01	-0.3	333	100
31	Clusterin_Apo_J	Clusterin (ApoJ)	2.88	0.30	2.89	0.34	1.87	3.76	-0.13	0.29	333	100
32	Complement_3	Complement component 3	-15.67	2.49	-15.71	3.69	-23.39	-9.56	0	-0.4	333	100
33	Complement_Factor_H	Complement factor H	3.52	1.25	3.57	1.5	-0.84	7.62	-0.01	0.71	333	100
34	Connective_Tissue_Growth_Factor	Connective tissue growth factor	0.77	0.21	0.79	0.27	0.10	1.41	-0.04	0.23	333	100
35	Cortisol	Cortisol	11.68	3.97	12.00	4.5	0.10	29.00	0.47	2.6	333	100
36	Creatine_Kinase_MB	Creatine kinase-MB	-1.67	0.09	-1.67	0.12	-1.87	-1.38	0.06	0.13	333	100
37	Cystatin_C	Cystatin C	8.58	0.40	8.56	0.52	7.43	9.69	0.2	0.07	333	100
38	EGF_R	Epidermal growth factor receptor	-0.70	0.23	-0.68	0.31	-1.36	0.19	-0.03	0.13	333	100
39	EN_RAGE	EN-RAGE (extracellular newly identified RAGE-binding protein)	-3.63	0.90	-3.65	1.05	-8.38	-0.39	-0.24	4.6	333	100
40	ENA_78	ENA-78 (epithelial-derived neutrophil-activating protein 78)	-1.37	0.01	-1.37	0.02	-1.41	-1.34	0.06	-0.06	233	69.97
41	Eotaxin_3	Eotaxin-3	57.65	16.36	57.00	26	7.00	107.00	0.21	-0.1	333	100
42	FAS	Fas (tumor necrosis factor receptor superfamily member 6)	-0.53	0.30	-0.53	0.4	-1.51	0.34	-0.03	-0.27	333	100
43	FSH_Follicle_Stimulation_Hormon	Follicle-stimulating hormone	-1.13	0.40	-1.11	0.57	-2.12	0.10	0.01	-0.44	333	100
44	Fas_Ligand	Fas ligand	2.90	1.08	2.85	1.3	-0.15	7.63	0.03	0.85	333	100
45	Fatty_Acid_Binding_Protein	Fatty acid-binding protein	1.34	0.78	1.31	1.1	-1.04	3.71	0.06	-0.13	333	100
46	Ferritin	Ferritin	2.75	0.78	2.73	1.01	0.61	4.93	0.02	0.03	333	100
47	Fetuin_A	Fetuin-A	1.35	0.38	1.34	0.54	0.47	2.25	0.14	-0.45	233	69.97
48	Fibrinogen	Fibrinogen	-7.36	0.58	-7.32	0.72	-9.37	-5.84	-0.12	0.31	333	100
49	GRO_alpha	Growth-regulated alpha protein	1.38	0.04	1.38	0.05	1.27	1.51	-0.03	0.23	333	100
50	Gamma_Interferon_induced_Monokin	Gamma interferon-induced monokine	2.78	0.11	2.78	0.16	2.39	3.07	-0.05	-0.16	333	100
51	Glutathione_S_Transferase_alpha	Glutathione S-transferase alpha	0.95	0.16	0.97	0.19	0.52	1.32	0.03	-0.44	333	100
52	HB_EGF	Heparin-binding epidermal growth factor	6.84	1.49	6.70	1.96	2.10	10.70	0.02	-0.15	333	100
53	HCC_4	HCC-4 (hemofiltrate CC chemokine-4)	-3.51	0.36	-3.54	0.46	-4.51	-2.12	0.28	0.54	333	100
54	Hepatocyte_Growth_Factor_HGF	Hepatocyte growth factor	0.19	0.30	0.18	0.41	-0.63	1.10	0.05	-0.01	333	100
55	I_309	I-309 (TCA-3)	2.95	0.37	2.94	0.47	1.76	4.14	-0.17	0.34	333	100
56	ICAM_1	Intercellular adhesion molecule 1	-0.59	0.33	-0.59	0.42	-1.53	0.52	-0.06	0.05	333	100
57	IGF_BP_2	Insulin-like growth factor-binding protein 2	5.31	0.21	5.30	0.28	4.63	5.95	-0.05	0.27	333	100
58	IL_11	Interleukin 11	4.71	1.42	4.81	2	1.75	8.69	-0.01	-0.39	333	100
59	IL_13	Interleukin 13	1.28	0.01	1.28	0.02	1.23	1.32	-0.03	1.55	333	100
60	IL_16	Interleukin 16	2.91	0.67	2.88	0.89	0.96	4.94	0	0.15	333	100
61	IL_17E	Interleukin 17E	4.84	1.33	4.75	1.48	1.05	8.95	0.06	0.22	333	100
62	IL_1alpha	Interleukin 1 alpha	-7.52	0.40	-7.54	0.56	-8.52	-5.95	0.28	0.35	333	100
63	IL_3	Interleukin 3	-3.95	0.51	-3.91	0.66	-5.91	-2.45	-0.22	0.47	333	100
64	IL_4	Interleukin 4	1.77	0.51	1.81	0.68	0.53	3.04	0	-0.27	333	100
65	IL_5	Interleukin 5	0.19	0.45	0.18	0.56	-1.43	1.95	-0.12	0.58	333	100
66	IL_6	Interleukin 6	-0.13	0.55	-0.09	0.6	-1.53	1.81	-0.05	0.84	333	100
67	IL_6_Receptor	Interleukin 6 receptor	0.09	0.32	0.10	0.5	-0.75	0.83	-0.06	-0.6	333	100
68	IL_7	Interleukin 7	2.90	1.02	2.92	1.55	0.56	5.71	-0.06	-0.48	333	100
69	IL_8	Interleukin 8	1.70	0.04	1.71	0.05	1.57	1.84	-0.03	0.68	333	100
70	IP_10_Inducible_Protein_10	Inducible protein 10	5.73	0.51	5.72	0.67	4.26	7.50	0.29	0.39	333	100
71	IgA	Immunoglobulin A	-6.11	0.74	-6.12	1.05	-10.52	-4.20	-0.55	3.07	333	100
72	Insulin	Insulin	-1.23	0.34	-1.25	0.41	-2.17	-0.16	-0.04	0.57	333	100
73	Kidney_Injury_Molecule_1_KIM_1	Kidney injury molecule 1	-1.19	0.03	-1.18	0.04	-1.26	-1.10	0.01	-0.25	333	100
74	LOX_1	Lectin-like oxidized LDL receptor 1	1.27	0.41	1.25	0.5	0.00	2.40	-0.04	0.14	333	100
75	Leptin	Leptin	-1.49	0.27	-1.47	0.38	-2.15	-0.62	0.04	-0.09	333	100
76	Lipoprotein_a	Lipoprotein(a)	-4.44	1.07	-4.63	1.7	-6.81	-1.39	0.38	-0.5	333	100
77	MCP_1	Monocyte chemoattractant protein 1	6.49	0.26	6.49	0.36	5.83	7.23	0.02	-0.24	333	100
78	MCP_2	Monocyte chemoattractant protein 2	1.86	0.64	1.85	0.65	0.40	4.02	0.04	1.01	333	100
79	MIF	Macrophage migration inhibitory factor	-1.88	0.33	-1.90	0.46	-2.85	-0.84	0.17	0.08	333	100
80	MIP_1alpha	Macrophage inflammatory protein 1 alpha	4.02	1.01	3.96	1.42	0.93	6.80	0.04	-0.11	333	100
81	MIP_1beta	Macrophage inflammatory protein 1 beta	2.81	0.38	2.83	0.48	1.92	4.01	0.16	-0.08	333	100
82	MMP_2	Matrix metalloproteinase 2	2.91	0.94	2.97	1.22	0.10	6.10	-0.02	0.25	333	100
83	MMP_3	Matrix metalloproteinase 3	-2.45	0.58	-2.48	0.66	-4.42	-0.53	-0.08	0.37	333	100
84	MMP10	Matrix metalloproteinase 10	-3.64	0.43	-3.61	0.61	-4.95	-2.21	0.09	0.26	333	100
85	MMP7	Matrix metalloproteinase 7	-3.83	1.55	-3.77	2.05	-8.40	-0.20	-0.04	-0.27	333	100
86	Myoglobin	Myoglobin	-1.38	0.94	-1.47	1.26	-3.30	1.77	0.63	0.47	333	100
87	NT_proBNP	N-terminal pro b-type natriuretic peptide	4.56	0.38	4.57	0.49	3.18	5.89	-0.09	1.03	233	69.97
88	NrCAM	Neuron-glia cell adhesion molecule	4.34	0.54	4.37	0.77	2.83	5.69	-0.25	-0.03	233	69.97
89	Osteopontin	Osteopontin	5.19	0.40	5.18	0.49	4.08	6.32	-0.07	0.18	233	69.97
90	PAI_1	Plasminogen activator inhibitor 1	0.07	0.43	0.09	0.59	-0.99	1.10	-0.09	-0.43	233	69.97
91	PAPP_A	Pregnancy-associated plasma protein A	-2.85	0.14	-2.87	0.23	-3.31	-2.49	-0.03	-0.38	333	100
92	PLGF	Placental growth factor	3.91	0.40	3.87	0.55	2.48	5.17	-0.11	0.14	333	100
93	PYY	Peptide YY	3.01	0.29	3.00	0.34	2.19	3.93	0.16	0.33	333	100
94	Pancreatic_polypeptide	Pancreatic polypeptide	-0.01	0.72	-0.01	1.04	-2.12	1.93	0.01	-0.36	333	100
95	Prolactin	Prolactin	0.05	0.30	0.00	0.39	-1.31	0.99	0.08	1.34	333	100
96	Prostatic_Acid_Phosphatase	Prostatic acid phosphatase	-1.68	0.06	-1.69	0.07	-1.93	-1.42	0.36	2.22	233	69.97
97	Protein_S	Protein S	-2.25	0.36	-2.26	0.46	-3.34	-1.22	-0.01	0.12	333	100
98	Pulmonary_and_Activation_Regulat	Pulmonary and activation-regulated chemokine	-1.49	0.45	-1.51	0.66	-2.51	-0.27	0.21	-0.46	333	100
99	RANTES	Regulated on activation, normal T cell expressed and secreted	-6.52	0.32	-6.50	0.41	-7.24	-5.55	0.22	-0.06	333	100
100	Resistin	Resistin	-17.76	5.69	-17.47	7.66	-34.97	-2.24	-0.04	-0.06	333	100
101	S100b	S100 calcium-binding protein B	1.24	0.35	1.21	0.48	0.19	2.37	0.04	0.04	333	100
102	SGOT	Serum glutamic-oxaloacetic transaminase	-0.42	0.35	-0.40	0.44	-1.90	0.74	-0.06	0.8	333	100
103	SHBG	Sex hormone-binding globulin	-2.52	0.57	-2.51	0.68	-4.14	-1.11	0.02	-0.14	333	100
104	SOD	Superoxide dismutase	5.33	0.38	5.35	0.5	4.32	6.46	-0.03	0.14	333	100
105	Serum_Amyloid_P	Serum amyloid P component	-6.03	0.55	-6.03	0.78	-7.51	-4.65	-0.03	-0.2	333	100
106	Sortilin	Sortilin	3.84	0.87	3.87	1.09	1.51	6.23	0	-0.13	333	100
107	Stem_Cell_Factor	Stem cell factor	3.29	0.36	3.30	0.48	2.22	4.28	0	-0.03	333	100
108	TGF_alpha	Transforming growth factor alpha	9.80	1.28	9.83	1.84	6.84	13.83	0.01	-0.15	333	100
109	TIMP_1	Tissue inhibitor of metalloproteinases 1	11.70	1.85	11.56	2.21	1.74	18.88	0.22	2.68	333	100
110	TNF_RII	Tumor necrosis factor receptor II	-0.60	0.34	-0.60	0.46	-1.66	0.47	0.03	0.16	333	100
111	TRAIL_R3	TNF-related apoptosis-inducing ligand receptor 3	-0.55	0.24	-0.55	0.32	-1.31	0.27	0.03	0.43	333	100
112	TTR_prealbumin	Transthyretin (prealbumin)	2.85	0.14	2.83	0.17	2.48	3.33	0.08	0.1	333	100
113	Tamm_Horsfall_Protein_THP	Tamm-Horsfall protein	-3.12	0.03	-3.12	0.04	-3.21	-2.99	0.06	0.56	333	100
114	Thrombomodulin	Thrombomodulin	-1.51	0.23	-1.49	0.33	-2.05	-0.82	-0.04	-0.22	333	100
115	Thrombopoietin	Thrombopoietin	-0.76	0.25	-0.75	0.29	-1.54	0.10	0.07	0.65	233	69.97
116	Thymus_Expressed_Chemokine_TECK	Thymus-expressed chemokine (TECK)	3.83	0.79	3.81	0.97	1.51	6.23	0.06	0.54	333	100
117	Thyroid_Stimulating_Hormone	Thyroid-stimulating hormone	-4.44	0.77	-4.42	0.93	-6.19	-1.71	0.09	0.77	333	100
118	Thyroxine_Binding_Globulin	Thyroxine-binding globulin	-1.46	0.41	-1.47	0.57	-2.48	-0.21	0.21	-0.26	233	69.97
119	Tissue_Factor	Tissue factor	1.16	0.51	1.19	0.69	-0.21	2.71	-0.06	0.02	333	100
120	Transferrin	Transferrin	2.91	0.28	2.89	0.38	1.93	3.76	-0.05	0.45	333	100
121	Trefoil_Factor_3_TFF3	Trefoil factor 3 (TFF3)	-3.89	0.34	-3.91	0.45	-4.91	-2.96	0.1	-0.09	333	100
122	VCAM_1	Vascular cell adhesion molecule 1	2.68	0.32	2.71	0.41	1.72	3.69	-0.06	0.02	333	100
123	VEGF	Vascular endothelial growth factor	16.93	1.87	17.08	2.43	11.83	22.38	0.03	0.05	333	100
124	Vitronectin	Vitronectin	-0.28	0.33	-0.29	0.47	-1.43	0.53	-0.04	-0.28	333	100
125	von_Willebrand_Factor	von Willebrand factor	-3.93	0.38	-3.91	0.55	-4.99	-2.96	-0.06	-0.4	333	100
126	tau	Tau protein	5.78	0.56	5.75	0.81	4.54	7.17	0.13	-0.54	333	100
127	p_tau	Phosphorylated tau protein	4.04	0.46	4.04	0.63	2.96	5.47	0.28	-0.11	333	100
128	Ab_42	Amyloid beta 42	12.41	1.55	12.47	2.5	9.06	15.96	-0.01	-0.9	233	69.97
129	Height	Height	68.95	3.88	69.00	6	57.00	80.00	-0.19	-0.19	333	100
130	Income	Income	40643.24	28273.47	34438.37	37121.05	412.65	213403.39	1.51	5.02	233	69.97

![]https://github.com/dcomtois/summarytools/raw/master/img/st-banner-fuzzy.png){style=“position: fixed; bottom: 0; right: 0; z-index: 1000;” height=“130”}

Continuous Data Distributions

PlotContinuousDistributions(df_Alzheimers, vars_Continuous[3:14], ncol = 3)

Categorical Data Distributions

vars_Categorical <- getCatVars(df_Alzheimers)
PlotCategoricalDistributions(df_Alzheimers)

Rushworth (2022)

Continuous x Continuous

PlotAssociations(df_Alzheimers, "age", "Adiponectin" )

Continuous x Continuous Matrix

Matrix_ContCont <- PlotCorrelationsHeatmap(df_Alzheimers, vars_Continuous[1:30], 
                                        method = "pearson",  covars = NULL, 
                                        Relabel = TRUE, Ordinal = FALSE)
Matrix_ContCont$Unadjusted$plot

Kassambara (2023)

Continuous x Continuous Matrix

Matrix_ContCont$Unadjusted$plot %>% plotly::ggplotly()

Continuous x Continuous Matrix

Matrix_ContCont <- PlotCorrelationsHeatmap(df_Alzheimers,
xVars = vars_Continuous[2:5],  yVars = vars_Continuous[20:40], 
Relabel = TRUE, Ordinal = FALSE)
Matrix_ContCont$Unadjusted$plot

Continuous x Continuous Matrix Visual Validation

plist <- plotSigCorrelations(df_Alzheimers, Matrix_ContCont)
cowplot::plot_grid(plotlist = plist[1:4], ncol = 2)

Feature Engineering:PCA

Principal Components Scree Plot

vars_LabMeasures <- VariableTypes %>% filter(Type == "Double", Category == "Lab Measures") %>% 
    pluck("Variable")
PCAObj<- CreatePCATable(df_Alzheimers, vars_LabMeasures[10:60],
          minThresh = 0.75, 
          scale = TRUE, center = TRUE)
PCAObj$p_scree

(2024)

Feature Engineering: PCA

Principal Components Lollipop (Loading) Plot

PCAObj$Lollipop

(2024)

Feature Engineering: PCA

Principal Components Lollipop (Loading) Plot Annotated

PCAObj<- CreatePCATable(df_Alzheimers, vars_LabMeasures[10:60],
                        minThresh = 0.75,
                        VariableCategories = 
                        VariableTypes %>% filter(Variable %in% vars_LabMeasures) %>% 
                        pluck("Subcategory"))
PCAObj$Lollipop

Continuous x Categorical

PlotAssociations(df_Alzheimers, "Diagnosis", "Ab_42" )

Continuous vs. Categorical Matrix

Matrix_ContCat <- PlotAnovaRelationshipsMatrix(df_Alzheimers, vars_Categorical, vars_Continuous[90:128],
                                               Relabel = T, Parametric = T, Covariates = NULL)
Matrix_ContCat$Unadjusted$plot

Continuous vs. Categorical Matrix

Matrix_ContCat$FDRCorrected$plot

ZScore

p_ZScore <- CreateZScorePlot(df_Alzheimers, TargetVar = "Diagnosis", 
                             Variables = vars_LabMeasures, sort = F)
p_ZScore

ZScore

p_ZScore <- CreateZScorePlot(df_Alzheimers, TargetVar = "Diagnosis", 
Variables = vars_LabMeasures, sort = F)
p_ZScore %>% plotly::ggplotly()

Add Annotations

p_ZScore <- CreateZScorePlot(df_Alzheimers, TargetVar = "Diagnosis",
Variables = vars_LabMeasures,
VariableCategories = VariableTypes %>% filter(Variable %in% vars_LabMeasures)%>% 
                    pluck("Subcategory"),
                    sort = TRUE)
p_ZScore %>% plotly::ggplotly()

Categorical x Categorical

PlotAssociations(df_Alzheimers, "Diagnosis", "Genotype" )

Categorical x Categorical Matrix

Matrix_CatCat <- PlotChiSqCovar(df_Alzheimers, 
                                xVars = vars_Categorical, yVars = vars_Categorical, 
                                Relabel = TRUE, covars = NULL)
Matrix_CatCat$p

Reproducibility

devtools::session_info()

─ Session info ───────────────────────────────────────────────────────────────
 setting  value
 version  R version 4.3.3 (2024-02-29)
 os       macOS Sonoma 14.5
 system   x86_64, darwin20
 ui       X11
 language (EN)
 collate  en_US.UTF-8
 ctype    en_US.UTF-8
 tz       America/New_York
 date     2024-06-13
 pandoc   3.1.11 @ /Applications/RStudio.app/Contents/Resources/app/quarto/bin/tools/x86_64/ (via rmarkdown)

─ Packages ───────────────────────────────────────────────────────────────────
 package          * version    date (UTC) lib source
 abind              1.4-5      2016-07-21 [1] CRAN (R 4.3.0)
 arsenal            3.6.3      2021-06-04 [1] CRAN (R 4.3.0)
 backports          1.5.0      2024-05-23 [1] CRAN (R 4.3.3)
 base64enc          0.1-3      2015-07-28 [1] CRAN (R 4.3.0)
 BayesFactor        0.9.12-4.7 2024-01-24 [1] CRAN (R 4.3.2)
 bayestestR         0.13.2     2024-02-12 [1] CRAN (R 4.3.2)
 bit                4.0.5      2022-11-15 [1] CRAN (R 4.3.0)
 bit64              4.0.5      2020-08-30 [1] CRAN (R 4.3.0)
 broom              1.0.6      2024-05-17 [1] CRAN (R 4.3.3)
 broom.helpers      1.15.0     2024-04-05 [1] CRAN (R 4.3.2)
 cachem             1.1.0      2024-05-16 [1] CRAN (R 4.3.3)
 car                3.1-2      2023-03-30 [1] CRAN (R 4.3.0)
 carData            3.0-5      2022-01-06 [1] CRAN (R 4.3.0)
 checkmate          2.3.1      2023-12-04 [1] CRAN (R 4.3.0)
 cli                3.6.2      2023-12-11 [1] CRAN (R 4.3.0)
 coda               0.19-4.1   2024-01-31 [1] CRAN (R 4.3.2)
 codebook           0.9.2      2020-06-06 [1] CRAN (R 4.3.0)
 codetools          0.2-20     2024-03-31 [1] CRAN (R 4.3.2)
 colorspace         2.1-0      2023-01-23 [1] CRAN (R 4.3.0)
 commonmark         1.9.1      2024-01-30 [1] CRAN (R 4.3.2)
 correlation        0.8.4      2023-04-06 [1] CRAN (R 4.3.0)
 cowplot            1.1.3      2024-01-22 [1] CRAN (R 4.3.2)
 crayon             1.5.2      2022-09-29 [1] CRAN (R 4.3.0)
 crosstalk          1.2.1      2023-11-23 [1] CRAN (R 4.3.0)
 data.table         1.15.4     2024-03-30 [1] CRAN (R 4.3.2)
 datawizard         0.10.0     2024-03-26 [1] CRAN (R 4.3.2)
 devtools           2.4.5      2022-10-11 [1] CRAN (R 4.3.0)
 digest             0.6.35     2024-03-11 [1] CRAN (R 4.3.2)
 distributional     0.4.0      2024-02-07 [1] CRAN (R 4.3.2)
 dplyr            * 1.1.4      2023-11-17 [1] CRAN (R 4.3.0)
 effectsize         0.8.8      2024-05-12 [1] CRAN (R 4.3.3)
 ellipsis           0.3.2      2021-04-29 [1] CRAN (R 4.3.0)
 emmeans            1.10.1     2024-04-06 [1] CRAN (R 4.3.2)
 estimability       1.5        2024-02-20 [1] CRAN (R 4.3.2)
 evaluate           0.24.0     2024-06-10 [1] CRAN (R 4.3.3)
 fansi              1.0.6      2023-12-08 [1] CRAN (R 4.3.0)
 farver             2.1.2      2024-05-13 [1] CRAN (R 4.3.3)
 fastmap            1.2.0      2024-05-15 [1] CRAN (R 4.3.3)
 fontawesome        0.5.2      2023-08-19 [1] CRAN (R 4.3.0)
 forcats          * 1.0.0      2023-01-29 [1] CRAN (R 4.3.0)
 fs                 1.6.4      2024-04-25 [1] CRAN (R 4.3.2)
 generics           0.1.3      2022-07-05 [1] CRAN (R 4.3.0)
 ggdist             3.3.2      2024-03-05 [1] CRAN (R 4.3.2)
 ggfittext          0.10.2     2024-02-01 [1] CRAN (R 4.3.2)
 gghalves           0.1.4      2022-11-20 [1] CRAN (R 4.3.0)
 ggplot2          * 3.5.1      2024-04-23 [1] CRAN (R 4.3.2)
 ggpp               0.5.7      2024-05-06 [1] CRAN (R 4.3.2)
 ggrain             0.0.4      2024-01-23 [1] CRAN (R 4.3.2)
 ggrepel            0.9.5      2024-01-10 [1] CRAN (R 4.3.0)
 ggside             0.3.1      2024-03-01 [1] CRAN (R 4.3.2)
 ggstatsplot        0.12.3     2024-04-06 [1] CRAN (R 4.3.2)
 glue               1.7.0      2024-01-09 [1] CRAN (R 4.3.0)
 gt               * 0.10.1     2024-01-17 [1] CRAN (R 4.3.0)
 gtable             0.3.5      2024-04-22 [1] CRAN (R 4.3.2)
 gtsummary          1.7.2      2023-07-15 [1] CRAN (R 4.3.0)
 haven              2.5.4      2023-11-30 [1] CRAN (R 4.3.0)
 hms                1.1.3      2023-03-21 [1] CRAN (R 4.3.0)
 htmltools          0.5.8.1    2024-04-04 [1] CRAN (R 4.3.2)
 htmlwidgets        1.6.4      2023-12-06 [1] CRAN (R 4.3.0)
 httpuv             1.6.15     2024-03-26 [1] CRAN (R 4.3.2)
 httr               1.4.7      2023-08-15 [1] CRAN (R 4.3.0)
 insight            0.20.1     2024-06-11 [1] CRAN (R 4.3.3)
 inspectdf          0.0.12     2022-08-09 [1] CRAN (R 4.3.0)
 jsonlite           1.8.8      2023-12-04 [1] CRAN (R 4.3.0)
 kableExtra         1.4.0      2024-01-24 [1] CRAN (R 4.3.2)
 knitr              1.47       2024-05-29 [1] CRAN (R 4.3.3)
 labeling           0.4.3      2023-08-29 [1] CRAN (R 4.3.0)
 labelled           2.13.0     2024-04-23 [1] CRAN (R 4.3.2)
 later              1.3.2      2023-12-06 [1] CRAN (R 4.3.0)
 lattice            0.22-6     2024-03-20 [1] CRAN (R 4.3.2)
 lazyeval           0.2.2      2019-03-15 [1] CRAN (R 4.3.0)
 lifecycle          1.0.4      2023-11-07 [1] CRAN (R 4.3.0)
 lubridate        * 1.9.3      2023-09-27 [1] CRAN (R 4.3.0)
 magick             2.8.3      2024-02-18 [1] CRAN (R 4.3.2)
 magrittr           2.0.3      2022-03-30 [1] CRAN (R 4.3.0)
 markdown           1.13       2024-06-04 [1] CRAN (R 4.3.3)
 MASS               7.3-60.0.1 2024-01-13 [1] CRAN (R 4.3.3)
 Matrix             1.6-5      2024-01-11 [1] CRAN (R 4.3.3)
 MatrixModels       0.5-3      2023-11-06 [1] CRAN (R 4.3.0)
 matrixStats        1.3.0      2024-04-11 [1] CRAN (R 4.3.2)
 memoise            2.0.1      2021-11-26 [1] CRAN (R 4.3.0)
 mgcv               1.9-1      2023-12-21 [1] CRAN (R 4.3.3)
 mime               0.12       2021-09-28 [1] CRAN (R 4.3.0)
 miniUI             0.1.1.1    2018-05-18 [1] CRAN (R 4.3.0)
 mnormt             2.1.1      2022-09-26 [1] CRAN (R 4.3.0)
 multcomp           1.4-25     2023-06-20 [1] CRAN (R 4.3.0)
 munsell            0.5.1      2024-04-01 [1] CRAN (R 4.3.2)
 mvtnorm            1.2-5      2024-05-21 [1] CRAN (R 4.3.3)
 naniar             1.1.0      2024-03-05 [1] CRAN (R 4.3.2)
 nlme               3.1-164    2023-11-27 [1] CRAN (R 4.3.0)
 paletteer          1.6.0      2024-01-21 [1] CRAN (R 4.3.0)
 pander             0.6.5      2022-03-18 [1] CRAN (R 4.3.0)
 parameters         0.21.7     2024-05-14 [1] CRAN (R 4.3.3)
 patchwork          1.2.0      2024-01-08 [1] CRAN (R 4.3.0)
 pbapply            1.7-2      2023-06-27 [1] CRAN (R 4.3.0)
 pillar             1.9.0      2023-03-22 [1] CRAN (R 4.3.0)
 pkgbuild           1.4.4      2024-03-17 [1] CRAN (R 4.3.2)
 pkgconfig          2.0.3      2019-09-22 [1] CRAN (R 4.3.0)
 pkgload            1.3.4      2024-01-16 [1] CRAN (R 4.3.0)
 plotly             4.10.4     2024-01-13 [1] CRAN (R 4.3.0)
 plotrix            3.8-4      2023-11-10 [1] CRAN (R 4.3.0)
 plyr               1.8.9      2023-10-02 [1] CRAN (R 4.3.0)
 polynom            1.4-1      2022-04-11 [1] CRAN (R 4.3.0)
 prettyunits        1.2.0      2023-09-24 [1] CRAN (R 4.3.0)
 prismatic          1.1.2      2024-04-10 [1] CRAN (R 4.3.2)
 profvis            0.3.8      2023-05-02 [1] CRAN (R 4.3.0)
 progress           1.2.3      2023-12-06 [1] CRAN (R 4.3.0)
 promises           1.3.0      2024-04-05 [1] CRAN (R 4.3.2)
 pryr               0.1.6      2023-01-17 [1] CRAN (R 4.3.0)
 psych              2.4.3      2024-03-18 [1] CRAN (R 4.3.2)
 purrr            * 1.0.2      2023-08-10 [1] CRAN (R 4.3.0)
 R6                 2.5.1      2021-08-19 [1] CRAN (R 4.3.0)
 rapportools        1.1        2022-03-22 [1] CRAN (R 4.3.0)
 RColorBrewer       1.1-3      2022-04-03 [1] CRAN (R 4.3.0)
 Rcpp               1.0.12     2024-01-09 [1] CRAN (R 4.3.0)
 readr            * 2.1.5      2024-01-10 [1] CRAN (R 4.3.0)
 rematch2           2.1.2      2020-05-01 [1] CRAN (R 4.3.0)
 remotes            2.5.0      2024-03-17 [1] CRAN (R 4.3.2)
 repr               1.1.7      2024-03-22 [1] CRAN (R 4.3.2)
 reshape2           1.4.4      2020-04-09 [1] CRAN (R 4.3.0)
 rlang              1.1.4      2024-06-04 [1] CRAN (R 4.3.3)
 rmarkdown          2.27       2024-05-17 [1] CRAN (R 4.3.3)
 rstatix            0.7.2      2023-02-01 [1] CRAN (R 4.3.0)
 rstudioapi         0.16.0     2024-03-24 [1] CRAN (R 4.3.2)
 sandwich           3.1-0      2023-12-11 [1] CRAN (R 4.3.0)
 sass               0.4.9      2024-03-15 [1] CRAN (R 4.3.2)
 scales             1.3.0      2023-11-28 [1] CRAN (R 4.3.0)
 SciDataReportR   * 0.63.0     2024-06-12 [1] Github (RDastgh1/SciDataReportR@a314378)
 sessioninfo        1.2.2      2021-12-06 [1] CRAN (R 4.3.0)
 shiny              1.8.1.1    2024-04-02 [1] CRAN (R 4.3.2)
 sjlabelled       * 1.2.0      2022-04-10 [1] CRAN (R 4.3.0)
 skimr              2.1.5      2022-12-23 [1] CRAN (R 4.3.0)
 statsExpressions   1.5.4      2024-03-20 [1] CRAN (R 4.3.2)
 stringi            1.8.4      2024-05-06 [1] CRAN (R 4.3.2)
 stringr          * 1.5.1      2023-11-14 [1] CRAN (R 4.3.0)
 summarytools       1.0.1      2022-05-20 [1] CRAN (R 4.3.0)
 survival           3.7-0      2024-06-05 [1] CRAN (R 4.3.3)
 svglite            2.1.3      2023-12-08 [1] CRAN (R 4.3.0)
 systemfonts        1.1.0      2024-05-15 [1] CRAN (R 4.3.3)
 TH.data            1.1-2      2023-04-17 [1] CRAN (R 4.3.0)
 tibble           * 3.2.1      2023-03-20 [1] CRAN (R 4.3.0)
 tidyr            * 1.3.1      2024-01-24 [1] CRAN (R 4.3.2)
 tidyselect         1.2.1      2024-03-11 [1] CRAN (R 4.3.2)
 tidyverse        * 2.0.0      2023-02-22 [1] CRAN (R 4.3.0)
 timechange         0.3.0      2024-01-18 [1] CRAN (R 4.3.0)
 tzdb               0.4.0      2023-05-12 [1] CRAN (R 4.3.0)
 urlchecker         1.0.1      2021-11-30 [1] CRAN (R 4.3.0)
 usethis            2.2.3      2024-02-19 [1] CRAN (R 4.3.2)
 utf8               1.2.4      2023-10-22 [1] CRAN (R 4.3.0)
 vctrs              0.6.5      2023-12-01 [1] CRAN (R 4.3.0)
 viridisLite        0.4.2      2023-05-02 [1] CRAN (R 4.3.0)
 visdat             0.6.0      2023-02-02 [1] CRAN (R 4.3.0)
 vroom              1.6.5      2023-12-05 [1] CRAN (R 4.3.0)
 withr              3.0.0      2024-01-16 [1] CRAN (R 4.3.0)
 xfun               0.44       2024-05-15 [1] CRAN (R 4.3.3)
 xml2               1.3.6      2023-12-04 [1] CRAN (R 4.3.0)
 xtable             1.8-4      2019-04-21 [1] CRAN (R 4.3.0)
 yaml               2.3.8      2023-12-11 [1] CRAN (R 4.3.0)
 zeallot            0.1.0      2018-01-28 [1] CRAN (R 4.3.0)
 zoo                1.8-12     2023-04-13 [1] CRAN (R 4.3.0)

 [1] /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library

──────────────────────────────────────────────────────────────────────────────

References

Arslan, Ruben C. 2019. “How to Automatically Document Data with the Codebook Package to Facilitate Data Re-Use.” 2. https://doi.org/10.1177/2515245919838783.

Iannone, Richard, Joe Cheng, Barret Schloerke, Ellis Hughes, Alexandra Lauer, and JooYoung Seo. 2024a. “Gt: Easily Create Presentation-Ready Display Tables.” https://CRAN.R-project.org/package=gt.

———. 2024b. “Gt: Easily Create Presentation-Ready Display Tables.” https://CRAN.R-project.org/package=gt.

Kassambara, Alboukadel. 2023. “Rstatix: Pipe-Friendly Framework for Basic Statistical Tests.” https://CRAN.R-project.org/package=rstatix.

Kuhn, Max, and Kjell Johnson. 2018. “AppliedPredictiveModeling: Functions and Data Sets for ’Applied Predictive Modeling’.” https://CRAN.R-project.org/package=AppliedPredictiveModeling.

Lüdecke, Daniel. 2022. “Sjlabelled: Labelled Data Utility Functions (Version 1.2.0).” https://doi.org/10.5281/zenodo.1249215.

Rushworth, Alastair. 2022. “Inspectdf: Inspection, Comparison and Visualisation of Data Frames.” https://CRAN.R-project.org/package=inspectdf.

Sjoberg, Daniel D., Karissa Whiting, Michael Curry, Jessica A. Lavery, and Joseph Larmarange. 2021. “Reproducible Summary Tables with the Gtsummary Package” 13: 570–80. https://doi.org/10.32614/RJ-2021-053.

Tierney, Nicholas, and Dianne Cook. 2023. “Expanding Tidy Data Principles to Facilitate Missing Data Exploration, Visualization and Assessment of Imputations” 105. https://doi.org/10.18637/jss.v105.i07.

Waring, Elin, Michael Quinn, Amelia McNamara, Eduardo Arino de la Rubia, Hao Zhu, and Shannon Ellis. 2022. “Skimr: Compact and Flexible Summaries of Data.” https://CRAN.R-project.org/package=skimr.

William Revelle. 2024. “Psych: Procedures for Psychological, Psychometric, and Personality Research.” https://CRAN.R-project.org/package=psych.