comparegroups updated: version 2.0

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1 comparegroups updated: version 2.0 Isaac Subirana & Joan Vila & Héctor Sanz & Judith Peñafiel & Gavin Lucas & David Giménez & & & RICAD Research on Inflammatory and Cardiovascular Disorders Program IMIM-Parc de Salut Mar, Barcelona userr! Albacete, July 10-12, 2013 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

2 Introduction Motivation Estruch R, Ros E, Salas-Salvadó J, Covas MI, Corella D, Arós F, Gómez-Gracia E, Ruiz-Gutiérrez V, Fiol M, Lapetra J, Lamuela-Raventos RM, Serra-Majem L, Pintó X, Basora J, Muñoz MA, Sorĺı JV, Martínez JA, Martínez-González MA; PREDIMED Study Investigators (2013). Primary prevention of cardiovascular disease with a Mediterranean diet. New England Journal of Medicine 368(14): Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

3 Introduction Package overview comparegroups package is meant to facilitate the user to create bivariate tables in an easy and rapid way. It has a lot of parameters to change different options: decimals, reference category, report means or medians, etc. Its code is structured in classes and methods in order to make the syntax code easier (formula, update, subset,...). It is simple and short to change deafault options. A GUI has been implemented for non familiarized R users.... WUI is under development. comparegroups package (version 1.4) is available on CRAN. The present version, comparegroups 2.0 will be submitted to CRAN soon. Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

4 Introduction Other existing R packages Already existent many functions to display descriptives: summaryby [doby], stat.desc [pastecs], ctab [catspec], stat.table [Epi], tablenominal, tabledate, tablecontinuous [reporttools], summary.formula [Hmisc],... Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

5 Introduction Other existing R packages But... Some of them too much specific: only categorical or only continuous Don t mix categorical, normal (mean-sd), non-normal (quantiles) Not very intuitive to customize tables No GUI s, Difficult to add HR/OR, to deal with time-to-event variables,..., Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

6 Introduction Improvements in 2.0 version Missingness test, Improvements in current version Analysis of genetic data (SNPs), Export tables to PDF, Generation of exhaustive report to PDF file, Create plots in pdf, bmp, jpeg, png or tiff. More formats in reporting statistics: mean ± SD,..., More detailed vignette with new data set (PREDIMED), GUI improved, WUI interface to use it from a remote server, web site to recieve feed back, publish package news, etc. Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

7 How to use it 1 By syntax (full functionallity) 2 By GUI (tcltk) 3 By WUI (no R installation required) under development Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

8 Classes and methods structure functions classes methods displaying modifying print update summary subset [ plot rbind comparegroups comparegroups comparesnps* update subset rbind cbind plot createtable createtable missingtable* print summary already implemented export2: latex, csv, html, pdf report new improved Step 1: Computations Step 2: Construction Step 3: Exportation Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

9 Results On R console Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

10 Results LaTeX format MALE FEMALE No event Event No event Event HR N=2528 N=151 N=3544 N=101 Epidemiological: Age 66.0± ± [1.03;1.08] 67.6± ± [1.07;1.14] Body mass index 29.3± ± [0.97;1.06] 30.5± ± [0.94;1.04] Waist circumference 103± ± [0.99;1.02] 98.3± ± [1.00;1.03] Waist-to-height ratio 0.62± ± [0.85;205] 0.64± ± [0.89;204] History: Smoking: Never 27.0% 16.6% Ref. 87.4% 88.1% Ref. Current 24.8% 26.5% 1.63 [0.99;2.69] 5.14% 8.91% 1.94 [0.97;3.84] Former 48.2% 57.0% 1.92 [1.23;3.00] 7.51% 2.97% 0.43 [0.14;1.35] Hypertension 77.7% 79.5% 1.20 [0.81;1.79] 86.4% 89.1% 1.31 [0.70;2.46] Type-2 diabetes 52.0% 64.2% 1.59 [1.14;2.22] 43.1% 63.4% 2.12 [1.41;3.18] Dyslipidemia 66.6% 58.9% 0.81 [0.58;1.11] 77.4% 61.4% 0.52 [0.35;0.78] Family history 17.4% 14.6% 0.89 [0.57;1.41] 26.5% 28.7% 1.18 [0.77;1.82] Mediterranean diet: Intervention group: Control 29.8% 38.4% Ref. 33.6% 38.6% Ref. MedDiet + Nuts 36.7% 27.2% 0.54 [0.36;0.80] 31.1% 28.7% 0.78 [0.48;1.26] MedDiet + VOO 33.5% 34.4% 0.71 [0.49;1.03] 35.3% 32.7% 0.69 [0.43;1.10] MeDiet Adherence score 9.00 [8.00;10.0] 8.00 [7.00;10.0] 0.87 [0.81;0.94] 9.00 [7.00;10.0] 8.00 [7.00;9.00] 0.88 [0.80;0.97] HR Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

11 Results On HTML format Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

12 Plots univariate Normality plots of 'Body mass index' Barplot of 'Smoking' Histogram mean= 30.0 SD= 3.82 Normal Q Q Plot Boxplot desv. Theoretical Quantiles Sample Quantiles Standard deviation from normality Freq Never Current Former K M survival of 'tevent' survival time Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

13 Plots bivariate Boxplot of 'Body mass index' by 'Intervention group' Barplot of 'Smoking' by 'Intervention group' Freq Never Current Former Control MedDiet + Nuts MedDiet + VOO Control MedDiet + Nuts MedDiet + VOO K M survival of 'tevent' by 'Smoking' survival Never Current Former time Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

14 By syntax Select variables, type,... > res <- comparegroups(tevent ~.-toevent-event, + data = predimed, + method = c(p14 = 2), + ref.no = 'no') > res Summary of results by groups of 'tevent' var N p.value method selection 1 Intervention group ** categorical ALL 2 Sex 6324 <0.001** categorical ALL 3 Age 6324 <0.001** continuous normal ALL 4 Smoking 6324 <0.001** categorical ALL 5 Body mass index continuous normal ALL 6 Waist circumference ** continuous normal ALL 7 Waist-to-height ratio * continuous normal ALL 8 Hypertension categorical ALL 9 Type-2 diabetes 6324 <0.001** categorical ALL 10 Dyslipidemia 6324 <0.001** categorical ALL 11 Family history of premature CHD categorical ALL 12 Hormone-replacement therapy categorical ALL 13 MeDiet Adherence score 6324 <0.001** continuous non-normal ALL Signif. codes: 0 '**' 0.05 '*' 0.1 ' ' 1 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

15 > restab <- createtable(res) By syntax Building the table No event Event N=6072 N=252 p.overall Intervention group: Control 1945 (32.0%) 97 (38.5%) MedDiet + Nuts 2030 (33.4%) 70 (27.8%) MedDiet + VOO 2097 (34.5%) 85 (33.7%) Sex: <0.001 Male 2528 (41.6%) 151 (59.9%) Female 3544 (58.4%) 101 (40.1%) Age 66.9 (6.14) 69.4 (6.65) <0.001 Smoking: <0.001 Never 3778 (62.2%) 114 (45.2%) Current 809 (13.3%) 49 (19.4%) Former 1485 (24.5%) 89 (35.3%) Body mass index 30.0 (3.81) 29.8 (3.92) Waist circumference 100 (10.6) 102 (10.6) Waist-to-height ratio 0.63 (0.07) 0.63 (0.07) Hypertension: No 1047 (17.2%) 42 (16.7%) Yes 5025 (82.8%) 210 (83.3%) Type-2 diabetes: <0.001 No 3231 (53.2%) 91 (36.1%) Yes 2841 (46.8%) 161 (63.9%) Dyslipidemia: <0.001 No 1645 (27.1%) 101 (40.1%) Yes 4427 (72.9%) 151 (59.9%) Family history of premature CHD: No 4694 (77.3%) 201 (79.8%) Yes 1378 (22.7%) 51 (20.2%) Hormone-replacement therapy: No 5341 (98.2%) 223 (99.6%) Yes 96 (1.77%) 1 (0.45%) MeDiet Adherence score 9.00 [7.00;10.0] 8.00 [7.00;10.0] <0.001 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

16 By syntax Costumazing the table > restab <- update(restab, hide.no="no", hide=c(sex='female')) No event Event N=6072 N=252 p.overall Intervention group: Control 1945 (32.0%) 97 (38.5%) MedDiet + Nuts 2030 (33.4%) 70 (27.8%) MedDiet + VOO 2097 (34.5%) 85 (33.7%) Sex: Male 2528 (41.6%) 151 (59.9%) <0.001 Age 66.9 (6.14) 69.4 (6.65) <0.001 Smoking: <0.001 Never 3778 (62.2%) 114 (45.2%) Current 809 (13.3%) 49 (19.4%) Former 1485 (24.5%) 89 (35.3%) Body mass index 30.0 (3.81) 29.8 (3.92) Waist circumference 100 (10.6) 102 (10.6) Waist-to-height ratio 0.63 (0.07) 0.63 (0.07) Hypertension 5025 (82.8%) 210 (83.3%) Type-2 diabetes 2841 (46.8%) 161 (63.9%) <0.001 Dyslipidemia 4427 (72.9%) 151 (59.9%) <0.001 Family history of premature CHD 1378 (22.7%) 51 (20.2%) Hormone-replacement therapy 96 (1.77%) 1 (0.45%) MeDiet Adherence score 9.00 [7.00;10.0] 8.00 [7.00;10.0] <0.001 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

17 By syntax Costumazing the table > restab <- update(restab, type = 1) No event Event N=6072 N=252 p.overall Intervention group: Control 32.0% 38.5% MedDiet + Nuts 33.4% 27.8% MedDiet + VOO 34.5% 33.7% Sex: Male 41.6% 59.9% <0.001 Age 66.9 (6.14) 69.4 (6.65) <0.001 Smoking: <0.001 Never 62.2% 45.2% Current 13.3% 19.4% Former 24.5% 35.3% Body mass index 30.0 (3.81) 29.8 (3.92) Waist circumference 100 (10.6) 102 (10.6) Waist-to-height ratio 0.63 (0.07) 0.63 (0.07) Hypertension 82.8% 83.3% Type-2 diabetes 46.8% 63.9% <0.001 Dyslipidemia 72.9% 59.9% <0.001 Family history of premature CHD 22.7% 20.2% Hormone-replacement therapy 1.77% 0.45% MeDiet Adherence score 9.00 [7.00;10.0] 8.00 [7.00;10.0] <0.001 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

18 By syntax Costumazing the table > restab <- update(restab, show.ratio=true, show.p.overall=false) No event Event N=6072 N=252 HR p.ratio Intervention group: Control 32.0% 38.5% Ref. Ref. MedDiet + Nuts 33.4% 27.8% 0.66 [0.48;0.89] MedDiet + VOO 34.5% 33.7% 0.70 [0.53;0.94] Sex: Male 41.6% 59.9% Ref. Ref. Age 66.9 (6.14) 69.4 (6.65) 1.06 [1.04;1.09] <0.001 Smoking: Never 62.2% 45.2% Ref. Ref. Current 13.3% 19.4% 1.96 [1.40;2.74] <0.001 Former 24.5% 35.3% 2.02 [1.53;2.67] <0.001 Body mass index 30.0 (3.81) 29.8 (3.92) 0.99 [0.96;1.02] Waist circumference 100 (10.6) 102 (10.6) 1.02 [1.01;1.03] Waist-to-height ratio 0.63 (0.07) 0.63 (0.07) 5.27 [0.83;33.6] Hypertension 82.8% 83.3% 1.10 [0.79;1.53] Type-2 diabetes 46.8% 63.9% 1.88 [1.46;2.44] <0.001 Dyslipidemia 72.9% 59.9% 0.62 [0.49;0.80] <0.001 Family history of premature CHD 22.7% 20.2% 0.93 [0.68;1.26] Hormone-replacement therapy 1.77% 0.45% 0.29 [0.04;2.10] MeDiet Adherence score 9.00 [7.00;10.0] 8.00 [7.00;10.0] 0.88 [0.83;0.94] <0.001 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

19 By syntax Costumazing the table > restab <- update(restab, show.descr=false) HR p.ratio Intervention group: Control Ref. Ref. MedDiet + Nuts 0.66 [0.48;0.89] MedDiet + VOO 0.70 [0.53;0.94] Sex: Male Ref. Ref. Age 1.06 [1.04;1.09] <0.001 Smoking: Never Ref. Ref. Current 1.96 [1.40;2.74] <0.001 Former 2.02 [1.53;2.67] <0.001 Body mass index 0.99 [0.96;1.02] Waist circumference 1.02 [1.01;1.03] Waist-to-height ratio 5.27 [0.83;33.6] Hypertension 1.10 [0.79;1.53] Type-2 diabetes 1.88 [1.46;2.44] <0.001 Dyslipidemia 0.62 [0.49;0.80] <0.001 Family history of premature CHD 0.93 [0.68;1.26] Hormone-replacement therapy 0.29 [0.04;2.10] MeDiet Adherence score 0.88 [0.83;0.94] <0.001 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

20 By syntax Costumazing the table > males<-update(restab,x=update(res,.~.-sex,subset=sex=='male'),hide=na) > females<-update(restab,x=update(res,.~.-sex,subset=sex=='female'),hide=na) > tabcomb<-cbind("males"=males,"females"=females) Males Females HR p.ratio HR p.ratio Intervention group: Control Ref. Ref. Ref. Ref. MedDiet + Nuts 0.54 [0.36;0.80] [0.48;1.26] MedDiet + VOO 0.71 [0.49;1.03] [0.43;1.10] Age 1.06 [1.03;1.08] < [1.07;1.14] <0.001 Smoking: Never Ref. Ref. Ref. Ref. Current 1.63 [0.99;2.69] [0.97;3.84] Former 1.92 [1.23;3.00] [0.14;1.35] Body mass index 1.01 [0.97;1.06] [0.94;1.04] Waist circumference 1.01 [0.99;1.02] [1.00;1.03] Waist-to-height ratio 13.2 [0.85;205] [0.89;204] Hypertension 1.20 [0.81;1.79] [0.70;2.46] Type-2 diabetes 1.59 [1.14;2.22] [1.41;3.18] <0.001 Dyslipidemia 0.81 [0.58;1.11] [0.35;0.78] Family history of premature CHD 0.89 [0.57;1.41] [0.77;1.82] Hormone-replacement therapy Ref. Ref [0.06;2.98] MeDiet Adherence score 0.87 [0.81;0.94] [0.80;0.97] Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

21 By syntax Methods/functions on tables > varinfo(restab) --- Analyzed variable names ---- Orig varname Shown varname 1 tevent tevent 2 group Intervention group 3 sex Sex 4 age Age 5 smoke Smoking 6 bmi Body mass index 7 waist Waist circumference 8 wth Waist-to-height ratio 9 htn Hypertension 10 diab Type-2 diabetes 11 hyperchol Dyslipidemia 12 famhist Family history of premature CHD 13 hormo Hormone-replacement therapy 14 p14 MeDiet Adherence score Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

22 By syntax Methods/functions on tables > summary(restab) ---Available data---- [ALL] No event Event method select Fact OR/HR Intervention group categorical ALL -- Sex categorical ALL -- Age continuous-normal ALL 1 Smoking categorical ALL -- Body mass index continuous-normal ALL 1 Waist circumference continuous-normal ALL 1 Waist-to-height ratio continuous-normal ALL 1 Hypertension categorical ALL -- Type-2 diabetes categorical ALL -- Dyslipidemia categorical ALL -- Family history of premature CHD categorical ALL -- Hormone-replacement therapy categorical ALL -- MeDiet Adherence score continuous-non-normal ALL 1 Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

23 By syntax Methods/functions on tables > restab[1:5] Summary descriptives table by 'tevent' HR p.ratio Intervention group: Control Ref. Ref. MedDiet + Nuts 0.66 [0.48;0.89] MedDiet + VOO 0.70 [0.53;0.94] Sex: Male Ref. Ref. Age 1.06 [1.04;1.09] <0.001 Smoking: Never Ref. Ref. Current 1.96 [1.40;2.74] <0.001 Former 2.02 [1.53;2.67] <0.001 Body mass index 0.99 [0.96;1.02] Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

24 REGICOR data By syntax Missingness N=431 N=786 N=1077 p.overall Age 54.1 (11.7) 54.3 (11.2) 55.3 (10.6) Sex: Male 206 (47.8%) 390 (49.6%) 505 (46.9%) Female 225 (52.2%) 396 (50.4%) 572 (53.1%) Smoking status: <0.001 Never smoker 234 (56.4%) 414 (54.6%) 553 (52.2%) Current or former < 1y 109 (26.3%) 267 (35.2%) 217 (20.5%) Former 1y 72 (17.3%) 77 (10.2%) 290 (27.4%) Systolic blood pressure 133 (19.2) 133 (21.3) 129 (19.8) <0.001 Diastolic blood pressure 77.0 (10.5) 80.8 (10.3) 79.9 (10.6) <0.001 History of hypertension 111 (25.8%) 233 (29.6%) 379 (35.5%) <0.001 Hypertension treatment 71 (16.5%) 127 (16.2%) 230 (22.2%) Total cholesterol 225 (43.1) 224 (44.4) 213 (45.9) <0.001 HDL cholesterol 51.9 (14.5) 52.3 (15.6) 53.2 (14.2) Triglycerides 114 (74.4) 114 (70.7) 117 (76.0) LDL cholesterol 152 (38.4) 149 (38.6) 136 (39.7) <0.001 History of hyperchol. 97 (22.5%) 256 (33.2%) 356 (33.2%) <0.001 Cholesterol treatment 28 (6.50%) 68 (8.80%) 132 (12.8%) <0.001 Height (cm) 163 (9.21) 162 (9.39) 163 (9.05) Weight (Kg) 72.3 (12.6) 73.8 (14.0) 73.6 (13.9) Body mass index 27.0 (4.15) 28.1 (4.62) 27.6 (4.63) <0.001 Physical activity (Kcal/week) 491 (419) 422 (377) 351 (378) <0.001 Physical component 49.3 (8.08) 49.0 (9.63) 50.1 (8.91) Mental component 49.2 (11.3) 48.9 (11.0) 46.9 (10.8) <0.001 Cardiovascular event 10 (2.51%) 35 (4.72%) 47 (4.59%) Days to cardiovascular event or end of follow-up 1784 (1101) 1686 (1080) 1793 (1072) Overall death 18 (4.65%) 81 (11.0%) 74 (7.23%) <0.001 Days to overall death or end of follow-up 1713 (1042) 1674 (1050) 1758 (1055) Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

25 By syntax Missingness Missing table > mistab<-missingtable(regtab) N=431 N=786 N=1077 p.overall Age 0 (0.00%) 0 (0.00%) 0 (0.00%) Sex 0 (0.00%) 0 (0.00%) 0 (0.00%) Smoking status 16 (3.71%) 28 (3.56%) 17 (1.58%) Systolic blood pressure 3 (0.70%) 11 (1.40%) 0 (0.00%) <0.001 Diastolic blood pressure 3 (0.70%) 11 (1.40%) 0 (0.00%) <0.001 History of hypertension 0 (0.00%) 0 (0.00%) 8 (0.74%) Hypertension treatment 0 (0.00%) 0 (0.00%) 43 (3.99%) <0.001 Total cholesterol 28 (6.50%) 71 (9.03%) 2 (0.19%) <0.001 HDL cholesterol 30 (6.96%) 38 (4.83%) 1 (0.09%) <0.001 Triglycerides 28 (6.50%) 34 (4.33%) 1 (0.09%) <0.001 LDL cholesterol 43 (9.98%) 98 (12.5%) 27 (2.51%) <0.001 History of hyperchol. 0 (0.00%) 15 (1.91%) 6 (0.56%) Cholesterol treatment 0 (0.00%) 13 (1.65%) 42 (3.90%) <0.001 Height (cm) 8 (1.86%) 15 (1.91%) 12 (1.11%) Weight (Kg) 8 (1.86%) 15 (1.91%) 12 (1.11%) Body mass index 8 (1.86%) 15 (1.91%) 12 (1.11%) Physical activity (Kcal/week) 64 (14.8%) 22 (2.80%) 2 (0.19%) <0.001 Physical component 34 (7.89%) 123 (15.6%) 83 (7.71%) <0.001 Mental component 34 (7.89%) 123 (15.6%) 83 (7.71%) <0.001 Cardiovascular event 33 (7.66%) 45 (5.73%) 53 (4.92%) Days to cardiovascular event or end of follow-up 33 (7.66%) 45 (5.73%) 53 (4.92%) Overall death 44 (10.2%) 48 (6.11%) 54 (5.01%) Days to overall death or end of follow-up 44 (10.2%) 48 (6.11%) 54 (5.01%) Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

26 By syntax Missingness Include NA as new category: > regtab2<-update(regtab,x=update(res,include.miss=true)) N=431 N=786 N=1077 p.overall Age 54.1 (11.7) 54.3 (11.2) 55.3 (10.6) Sex: Male 206 (47.8%) 390 (49.6%) 505 (46.9%) Female 225 (52.2%) 396 (50.4%) 572 (53.1%) Smoking status: <0.001 Never smoker 234 (54.3%) 414 (52.7%) 553 (51.3%) Current or former < 1y 109 (25.3%) 267 (34.0%) 217 (20.1%) Former 1y 72 (16.7%) 77 (9.80%) 290 (26.9%) <Missing> 16 (3.71%) 28 (3.56%) 17 (1.58%) Systolic blood pressure 133 (19.2) 133 (21.3) 129 (19.8) <0.001 Diastolic blood pressure 77.0 (10.5) 80.8 (10.3) 79.9 (10.6) <0.001 History of hypertension: <0.001 Yes 111 (25.8%) 233 (29.6%) 379 (35.2%) No 320 (74.2%) 553 (70.4%) 690 (64.1%) <Missing> 0 (0.00%) 0 (0.00%) 8 (0.74%) Hypertension treatment: <0.001 No 360 (83.5%) 659 (83.8%) 804 (74.7%) Yes 71 (16.5%) 127 (16.2%) 230 (21.4%) <Missing> 0 (0.00%) 0 (0.00%) 43 (3.99%) Total cholesterol 225 (43.1) 224 (44.4) 213 (45.9) <0.001 HDL cholesterol 51.9 (14.5) 52.3 (15.6) 53.2 (14.2) Triglycerides 114 (74.4) 114 (70.7) 117 (76.0) LDL cholesterol 152 (38.4) 149 (38.6) 136 (39.7) <0.001 History of hyperchol.: <0.001 Yes 97 (22.5%) 256 (32.6%) 356 (33.1%) No 334 (77.5%) 515 (65.5%) 715 (66.4%) <Missing> 0 (0.00%) 15 (1.91%) 6 (0.56%) Cholesterol treatment: <0.001 No 403 (93.5%) 705 (89.7%) 903 (83.8%) Yes Isaac Subirana & Joan Vila (RICAD) 28 (6.50%) 68 (8.65%) comparegroups updated: version (12.3%) July 10-12, / 36

27 By syntax Exporting the table to L A TEX > export2latex(restab,"table1") to ASCII (csv) > export2csv(restab,"table1") to HTML > export2html(restab,"table1") to PDF > export2pdf(restab,"table1") Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

28 By syntax Summary of genetic data > comparesnps( ~ snp10001+snp10002+snp10003+snp snp10005+snp10006+snp10007+snp10008, SNPs) *********** Summary of genetic data (SNPs) *********** SNP Ntyped MAF Genotypes Genotypes.p HWE.p ===================================================== snp % TT TC CC snp % CC CA AA snp % GG snp % GG snp % GG GA AA snp % AA snp % CC snp % CC CG GG Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

29 GUI > cgroupsgui() Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

30 Web User Interface Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

31 Web User Interface Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

32 Web User Interface Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

33 Web User Interface Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

34 Web site comparegroups web site Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

35 Future works Future works Develop WUI and website Implement other tabular environments when exporting to L A TEX. Export to Word (explore R2wd package).... Suggestions Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36

36 THANK YOU! MUCHAS GRACIAS! MOLTES GRÀCIES! Don t hesitate to contact us: Isaac Subirana < isubirana@imim.es > Joan Vila < jvila@imim.es > Isaac Subirana & Joan Vila (RICAD) comparegroups updated: version 2.0 July 10-12, / 36