From c72ff192fda1f777bfe5612946c569bf6fb7cae1 Mon Sep 17 00:00:00 2001 From: Gibran Hemani Date: Sat, 7 Dec 2024 09:08:35 +0000 Subject: [PATCH] updated crp covariates --- phenotype_list.csv | 2 +- test/example-data/phen_input/adiponectin.txt | 60 +++++++++--------- test/example-data/phen_input/bmi.txt | 60 +++++++++--------- test/example-data/phen_input/calcium.txt | 60 +++++++++--------- test/example-data/phen_input/crp.txt | 62 +++++++++---------- test/example-data/phen_input/dbp.txt | 60 +++++++++--------- test/example-data/phen_input/estradiol.txt | 60 +++++++++--------- test/example-data/phen_input/fev1.txt | 60 +++++++++--------- test/example-data/phen_input/fev1fvc.txt | 60 +++++++++--------- test/example-data/phen_input/hba1c.txt | 60 +++++++++--------- test/example-data/phen_input/hdl.txt | 60 +++++++++--------- test/example-data/phen_input/height.txt | 60 +++++++++--------- test/example-data/phen_input/il6.txt | 60 +++++++++--------- test/example-data/phen_input/insulin.txt | 60 +++++++++--------- test/example-data/phen_input/ldl.txt | 60 +++++++++--------- test/example-data/phen_input/leptin.txt | 60 +++++++++--------- test/example-data/phen_input/sbp.txt | 60 +++++++++--------- test/example-data/phen_input/shbg.txt | 60 +++++++++--------- .../phen_input/static_covariates.txt | 40 ++++++------ test/example-data/phen_input/tb-bmd.txt | 60 +++++++++--------- test/example-data/phen_input/testosterone.txt | 60 +++++++++--------- test/example-data/phen_input/trig.txt | 60 +++++++++--------- test/example-data/phen_input/vitd.txt | 60 +++++++++--------- test/example-data/phen_input/wc.txt | 60 +++++++++--------- test/example-data/phen_input/whr.txt | 60 +++++++++--------- 25 files changed, 712 insertions(+), 712 deletions(-) diff --git a/phenotype_list.csv b/phenotype_list.csv index 5197744..a450270 100644 --- a/phenotype_list.csv +++ b/phenotype_list.csv @@ -11,7 +11,7 @@ Diastolic blood pressure,dbp,cont,mmHg,0,250,sex:bp_med,none,yes, LDL cholesterol,ldl,cont,mmol/L,0,10,sex:cholesterol_med,none,yes,ieu-b-110 HDL cholesterol,hdl,cont,mmol/L,0,10,sex:cholesterol_med,none,yes,ieu-b-109 Triglycerides,trig,cont,mmol/L,0,20,sex:cholesterol_med,none,yes,ieu-b-111 -C-reactive protein,crp,cont,mg/L,0,100,sex,none,yes,ebi-a-GCST90014002 +C-reactive protein,crp,cont,mg/L,0,100,sex:cholesterol_med,none,yes,ebi-a-GCST90014002 Interleukin 6,il6,cont,pg/ml,0,100,sex,none,yes,ebi-a-GCST90012005 Leptin,leptin,cont,ng/ml,0,100,sex,none,yes,ebi-a-GCST90007307 Glycated haemoglobin,hba1c,cont,mmol/mol,0,70,sex:insulin_med,none,yes,ebi-a-GCST90014006 diff --git a/test/example-data/phen_input/adiponectin.txt b/test/example-data/phen_input/adiponectin.txt index 4856a0b..3a1bde3 100644 --- a/test/example-data/phen_input/adiponectin.txt +++ b/test/example-data/phen_input/adiponectin.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 5.89 71.92 -1122 1122 15.58 66.92 -1187 1187 57.66 39.17 -2044 2044 38.08 54.83 -2044 2044 60.46 49.83 -2607 2607 99.39 45.67 -2607 2607 38.89 40.67 -2695 2695 8.09 68.67 -2900 2900 67.33 32.83 -3803 3803 77.62 67.42 -4998 4998 55.2 82.33 -4998 4998 21.55 77.33 -5038 5038 59.32 76.5 -5038 5038 7.01 71.5 -5244 5244 62.79 70.92 -5244 5244 54.86 65.92 -5372 5372 53.98 62.42 -5582 5582 5.95 55.08 -5582 5582 96.12 50.08 -6127 6127 78.61 59.92 -6127 6127 20.12 54.92 -7546 7546 72.25 52.17 -7613 7613 60.45 47.5 -7954 7954 38.07 24.5 -8083 8083 82.82 77.08 -8083 8083 39.84 72.08 -9211 9211 12.11 55.75 -9491 9491 72.13 30.75 -9685 9685 69.46 74.67 -9685 9685 79.05 69.67 +1504 1504 95.35 62.25 +1504 1504 34.83 57.25 +1763 1763 22.92 75.08 +1900 1900 66.64 57.08 +1979 1979 49.64 27.17 +2077 2077 3.33 56.42 +3922 3922 52.49 40.92 +3922 3922 98.7 35.92 +4050 4050 20.93 22.08 +4110 4110 34.15 67.08 +4577 4577 72.78 47.67 +4577 4577 58.47 42.67 +4670 4670 72.4 30.75 +4670 4670 56.08 25.75 +4731 4731 7.6 69.08 +4731 4731 1.21 64.08 +5190 5190 35.47 42.25 +5190 5190 35.68 37.25 +5725 5725 3.42 41.17 +5725 5725 14.76 36.17 +6120 6120 32.14 23.67 +7094 7094 66.38 54.25 +7094 7094 59.32 49.25 +7296 7296 34.09 27.08 +7317 7317 99.55 67.17 +7317 7317 48.01 62.17 +7388 7388 4.51 51.08 +7388 7388 37.41 46.08 +7524 7524 8.37 35.75 +8061 8061 46.86 76.67 diff --git a/test/example-data/phen_input/bmi.txt b/test/example-data/phen_input/bmi.txt index 8a85069..8f24f0c 100644 --- a/test/example-data/phen_input/bmi.txt +++ b/test/example-data/phen_input/bmi.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 26.08 71.92 -1122 1122 44.14 66.92 -1187 1187 31.71 39.17 -2044 2044 12.87 54.83 -2044 2044 50.52 49.83 -2607 2607 52.32 45.67 -2607 2607 32.43 40.67 -2695 2695 7.43 68.67 -2900 2900 46.7 32.83 -3803 3803 56.9 67.42 -4998 4998 13.47 82.33 -4998 4998 45.62 77.33 -5038 5038 40.44 76.5 -5038 5038 24.47 71.5 -5244 5244 20.95 70.92 -5244 5244 32.18 65.92 -5372 5372 29.56 62.42 -5582 5582 50.05 55.08 -5582 5582 1.54 50.08 -6127 6127 13.09 59.92 -6127 6127 50.42 54.92 -7546 7546 36.42 52.17 -7613 7613 47.44 47.5 -7954 7954 49.87 24.5 -8083 8083 44.77 77.08 -8083 8083 12.78 72.08 -9211 9211 44.99 55.75 -9491 9491 20.29 30.75 -9685 9685 45.46 74.67 -9685 9685 36.14 69.67 +1504 1504 36.45 62.25 +1504 1504 33.78 57.25 +1763 1763 15.78 75.08 +1900 1900 52.22 57.08 +1979 1979 10.17 27.17 +2077 2077 44.35 56.42 +3922 3922 26.97 40.92 +3922 3922 54.14 35.92 +4050 4050 20.48 22.08 +4110 4110 10.24 67.08 +4577 4577 55.19 47.67 +4577 4577 3.37 42.67 +4670 4670 31.09 30.75 +4670 4670 56.75 25.75 +4731 4731 52.49 69.08 +4731 4731 25.24 64.08 +5190 5190 21.67 42.25 +5190 5190 45.99 37.25 +5725 5725 0.34 41.17 +5725 5725 5.31 36.17 +6120 6120 45.72 23.67 +7094 7094 6.08 54.25 +7094 7094 46.22 49.25 +7296 7296 57.82 27.08 +7317 7317 10.95 67.17 +7317 7317 53.41 62.17 +7388 7388 49.39 51.08 +7388 7388 22.75 46.08 +7524 7524 45.32 35.75 +8061 8061 43.06 76.67 diff --git a/test/example-data/phen_input/calcium.txt b/test/example-data/phen_input/calcium.txt index ea6a850..286c796 100644 --- a/test/example-data/phen_input/calcium.txt +++ b/test/example-data/phen_input/calcium.txt @@ -1,31 +1,31 @@ FID IID value age cholesterol_med -1122 1122 4.65 71.92 1 -1122 1122 2.51 66.92 0 -1187 1187 3.81 39.17 0 -2044 2044 9.83 54.83 0 -2044 2044 2.87 49.83 1 -2607 2607 8.61 45.67 1 -2607 2607 3.74 40.67 0 -2695 2695 4.57 68.67 1 -2900 2900 8.2 32.83 0 -3803 3803 9.71 67.42 0 -4998 4998 1.72 82.33 0 -4998 4998 5.06 77.33 1 -5038 5038 0.52 76.5 0 -5038 5038 3.97 71.5 0 -5244 5244 5.55 70.92 1 -5244 5244 1.76 65.92 0 -5372 5372 2.5 62.42 1 -5582 5582 5.66 55.08 1 -5582 5582 0.77 50.08 1 -6127 6127 4.23 59.92 0 -6127 6127 4.31 54.92 1 -7546 7546 9.51 52.17 1 -7613 7613 2.14 47.5 0 -7954 7954 6.31 24.5 1 -8083 8083 1.3 77.08 0 -8083 8083 5.93 72.08 1 -9211 9211 3.92 55.75 0 -9491 9491 8.74 30.75 1 -9685 9685 7.31 74.67 1 -9685 9685 5.17 69.67 1 +1504 1504 3.64 62.25 1 +1504 1504 4.24 57.25 0 +1763 1763 1.53 75.08 1 +1900 1900 2.46 57.08 0 +1979 1979 9.01 27.17 0 +2077 2077 8.22 56.42 0 +3922 3922 8.25 40.92 0 +3922 3922 3 35.92 1 +4050 4050 3.65 22.08 1 +4110 4110 1.88 67.08 1 +4577 4577 3.04 47.67 1 +4577 4577 4.72 42.67 0 +4670 4670 1.84 30.75 0 +4670 4670 6.8 25.75 1 +4731 4731 4.3 69.08 1 +4731 4731 4.21 64.08 1 +5190 5190 7.86 42.25 0 +5190 5190 6.34 37.25 0 +5725 5725 2.93 41.17 1 +5725 5725 8.95 36.17 1 +6120 6120 5.79 23.67 0 +7094 7094 7.85 54.25 0 +7094 7094 1.91 49.25 1 +7296 7296 4.4 27.08 1 +7317 7317 8.25 67.17 1 +7317 7317 2.05 62.17 1 +7388 7388 8.05 51.08 0 +7388 7388 9.21 46.08 0 +7524 7524 1.2 35.75 0 +8061 8061 7.67 76.67 1 diff --git a/test/example-data/phen_input/crp.txt b/test/example-data/phen_input/crp.txt index 5ed5777..6212375 100644 --- a/test/example-data/phen_input/crp.txt +++ b/test/example-data/phen_input/crp.txt @@ -1,31 +1,31 @@ -FID IID value age -1122 1122 71.32 71.92 -1122 1122 72.04 66.92 -1187 1187 39.03 39.17 -2044 2044 40.94 54.83 -2044 2044 55.6 49.83 -2607 2607 14.28 45.67 -2607 2607 62.85 40.67 -2695 2695 38.23 68.67 -2900 2900 38.56 32.83 -3803 3803 48 67.42 -4998 4998 76.14 82.33 -4998 4998 85.52 77.33 -5038 5038 69.66 76.5 -5038 5038 88.11 71.5 -5244 5244 35.71 70.92 -5244 5244 74.66 65.92 -5372 5372 36.17 62.42 -5582 5582 51.24 55.08 -5582 5582 15.94 50.08 -6127 6127 77.69 59.92 -6127 6127 41.18 54.92 -7546 7546 30.73 52.17 -7613 7613 52.93 47.5 -7954 7954 49.43 24.5 -8083 8083 92.59 77.08 -8083 8083 72.58 72.08 -9211 9211 39.81 55.75 -9491 9491 97.62 30.75 -9685 9685 90.61 74.67 -9685 9685 70.71 69.67 +FID IID value age cholesterol_med +1504 1504 41.35 62.25 1 +1504 1504 38.17 57.25 0 +1763 1763 38.81 75.08 0 +1900 1900 12.29 57.08 1 +1979 1979 85.32 27.17 1 +2077 2077 97.87 56.42 1 +3922 3922 15.78 40.92 0 +3922 3922 43.25 35.92 0 +4050 4050 21.6 22.08 0 +4110 4110 31.74 67.08 1 +4577 4577 95.62 47.67 0 +4577 4577 51.89 42.67 1 +4670 4670 17.97 30.75 0 +4670 4670 3.66 25.75 0 +4731 4731 72.22 69.08 0 +4731 4731 92.63 64.08 0 +5190 5190 62.08 42.25 0 +5190 5190 63.85 37.25 0 +5725 5725 41.01 41.17 1 +5725 5725 4.25 36.17 1 +6120 6120 16.86 23.67 0 +7094 7094 14.79 54.25 0 +7094 7094 78.44 49.25 1 +7296 7296 34.73 27.08 1 +7317 7317 24.29 67.17 1 +7317 7317 17.19 62.17 0 +7388 7388 96.33 51.08 0 +7388 7388 21.64 46.08 0 +7524 7524 65.32 35.75 0 +8061 8061 82.33 76.67 1 diff --git a/test/example-data/phen_input/dbp.txt b/test/example-data/phen_input/dbp.txt index c93a513..520bd17 100644 --- a/test/example-data/phen_input/dbp.txt +++ b/test/example-data/phen_input/dbp.txt @@ -1,31 +1,31 @@ FID IID value age bp_med -1122 1122 141.07 71.92 1 -1122 1122 177.71 66.92 0 -1187 1187 170.34 39.17 1 -2044 2044 202.25 54.83 1 -2044 2044 234.48 49.83 1 -2607 2607 5.09 45.67 1 -2607 2607 22.92 40.67 1 -2695 2695 128.21 68.67 1 -2900 2900 227.73 32.83 1 -3803 3803 174.26 67.42 0 -4998 4998 125.23 82.33 0 -4998 4998 10.31 77.33 1 -5038 5038 26.44 76.5 0 -5038 5038 193.04 71.5 0 -5244 5244 100.7 70.92 1 -5244 5244 74.65 65.92 0 -5372 5372 212.75 62.42 0 -5582 5582 163.86 55.08 1 -5582 5582 48.66 50.08 0 -6127 6127 235.5 59.92 0 -6127 6127 235.37 54.92 1 -7546 7546 10.78 52.17 1 -7613 7613 228.1 47.5 0 -7954 7954 4.42 24.5 1 -8083 8083 141.16 77.08 1 -8083 8083 33.84 72.08 1 -9211 9211 63.38 55.75 0 -9491 9491 153.91 30.75 1 -9685 9685 38.72 74.67 1 -9685 9685 130.3 69.67 0 +1504 1504 84.6 62.25 0 +1504 1504 64.41 57.25 0 +1763 1763 153.28 75.08 1 +1900 1900 46.66 57.08 0 +1979 1979 130.16 27.17 0 +2077 2077 140.23 56.42 0 +3922 3922 55.36 40.92 0 +3922 3922 232 35.92 1 +4050 4050 77.04 22.08 1 +4110 4110 136.36 67.08 0 +4577 4577 31.56 47.67 0 +4577 4577 147.71 42.67 0 +4670 4670 245.25 30.75 1 +4670 4670 194.71 25.75 0 +4731 4731 40.29 69.08 1 +4731 4731 189.84 64.08 1 +5190 5190 222.08 42.25 1 +5190 5190 132.11 37.25 1 +5725 5725 143.37 41.17 1 +5725 5725 238.49 36.17 1 +6120 6120 130.66 23.67 0 +7094 7094 223.7 54.25 0 +7094 7094 144.71 49.25 0 +7296 7296 224.06 27.08 1 +7317 7317 66.46 67.17 0 +7317 7317 72.17 62.17 0 +7388 7388 3.86 51.08 0 +7388 7388 215.36 46.08 0 +7524 7524 174.01 35.75 1 +8061 8061 220.83 76.67 1 diff --git a/test/example-data/phen_input/estradiol.txt b/test/example-data/phen_input/estradiol.txt index 1788f77..ee2715a 100644 --- a/test/example-data/phen_input/estradiol.txt +++ b/test/example-data/phen_input/estradiol.txt @@ -1,31 +1,31 @@ FID IID value age hormone_med -1122 1122 2044.54 71.92 0 -1122 1122 8231.35 66.92 1 -1187 1187 8502.07 39.17 0 -2044 2044 11838.6 54.83 0 -2044 2044 14950.6 49.83 0 -2607 2607 11927.48 45.67 1 -2607 2607 4633.57 40.67 1 -2695 2695 3288.25 68.67 0 -2900 2900 6700.1 32.83 0 -3803 3803 4973.38 67.42 0 -4998 4998 311.94 82.33 1 -4998 4998 12820.74 77.33 1 -5038 5038 433.42 76.5 1 -5038 5038 9451.64 71.5 0 -5244 5244 5670.68 70.92 0 -5244 5244 4648.37 65.92 0 -5372 5372 7695.24 62.42 0 -5582 5582 8781.54 55.08 0 -5582 5582 1266.03 50.08 0 -6127 6127 8102.62 59.92 1 -6127 6127 4313.55 54.92 0 -7546 7546 7464.29 52.17 1 -7613 7613 1649.4 47.5 0 -7954 7954 13378.21 24.5 1 -8083 8083 10182.49 77.08 1 -8083 8083 14909.61 72.08 1 -9211 9211 13321.9 55.75 0 -9491 9491 4085.86 30.75 1 -9685 9685 1896.48 74.67 1 -9685 9685 67.13 69.67 1 +1504 1504 437.7 62.25 1 +1504 1504 6127.54 57.25 0 +1763 1763 7120.43 75.08 0 +1900 1900 5692.89 57.08 0 +1979 1979 11858.23 27.17 0 +2077 2077 275.6 56.42 1 +3922 3922 4418.55 40.92 1 +3922 3922 6229.5 35.92 0 +4050 4050 10210.51 22.08 0 +4110 4110 8983.63 67.08 1 +4577 4577 12805.32 47.67 1 +4577 4577 4964.53 42.67 1 +4670 4670 4201.74 30.75 1 +4670 4670 1628.57 25.75 1 +4731 4731 13571.77 69.08 1 +4731 4731 3351.82 64.08 1 +5190 5190 5549.88 42.25 0 +5190 5190 2902.55 37.25 0 +5725 5725 10036.01 41.17 0 +5725 5725 9154.09 36.17 1 +6120 6120 9659.57 23.67 0 +7094 7094 1957.1 54.25 0 +7094 7094 7202.15 49.25 1 +7296 7296 7932.86 27.08 1 +7317 7317 12249.43 67.17 0 +7317 7317 7315.52 62.17 1 +7388 7388 2247.74 51.08 1 +7388 7388 8609.67 46.08 1 +7524 7524 10187.48 35.75 1 +8061 8061 14198.43 76.67 1 diff --git a/test/example-data/phen_input/fev1.txt b/test/example-data/phen_input/fev1.txt index fc97ae1..38d77ad 100644 --- a/test/example-data/phen_input/fev1.txt +++ b/test/example-data/phen_input/fev1.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 8.3 71.92 -1122 1122 1.24 66.92 -1187 1187 5.42 39.17 -2044 2044 9.36 54.83 -2044 2044 1.4 49.83 -2607 2607 7.13 45.67 -2607 2607 4.61 40.67 -2695 2695 0.9 68.67 -2900 2900 0.96 32.83 -3803 3803 2.82 67.42 -4998 4998 5.02 82.33 -4998 4998 5.01 77.33 -5038 5038 6.89 76.5 -5038 5038 5.79 71.5 -5244 5244 5.43 70.92 -5244 5244 0.51 65.92 -5372 5372 6.49 62.42 -5582 5582 2.72 55.08 -5582 5582 5.56 50.08 -6127 6127 9.86 59.92 -6127 6127 3.51 54.92 -7546 7546 8.47 52.17 -7613 7613 6.31 47.5 -7954 7954 7.62 24.5 -8083 8083 1.03 77.08 -8083 8083 6.92 72.08 -9211 9211 0.12 55.75 -9491 9491 8.39 30.75 -9685 9685 7.16 74.67 -9685 9685 6.32 69.67 +1504 1504 9.41 62.25 +1504 1504 7.84 57.25 +1763 1763 6.67 75.08 +1900 1900 2.12 57.08 +1979 1979 4.48 27.17 +2077 2077 8.73 56.42 +3922 3922 8.68 40.92 +3922 3922 9.64 35.92 +4050 4050 1.74 22.08 +4110 4110 9.5 67.08 +4577 4577 5.37 47.67 +4577 4577 9.62 42.67 +4670 4670 7.05 30.75 +4670 4670 8.74 25.75 +4731 4731 0.58 69.08 +4731 4731 7.4 64.08 +5190 5190 1.02 42.25 +5190 5190 8.42 37.25 +5725 5725 0.91 41.17 +5725 5725 5.22 36.17 +6120 6120 7.86 23.67 +7094 7094 7.34 54.25 +7094 7094 7.84 49.25 +7296 7296 8.39 27.08 +7317 7317 3.19 67.17 +7317 7317 9.61 62.17 +7388 7388 4.19 51.08 +7388 7388 6.75 46.08 +7524 7524 7.81 35.75 +8061 8061 3.03 76.67 diff --git a/test/example-data/phen_input/fev1fvc.txt b/test/example-data/phen_input/fev1fvc.txt index 3bce342..efa4210 100644 --- a/test/example-data/phen_input/fev1fvc.txt +++ b/test/example-data/phen_input/fev1fvc.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 5.15 71.92 -1122 1122 8.99 66.92 -1187 1187 7.43 39.17 -2044 2044 7.4 54.83 -2044 2044 0.18 49.83 -2607 2607 7.25 45.67 -2607 2607 3.24 40.67 -2695 2695 2.19 68.67 -2900 2900 9.69 32.83 -3803 3803 8.99 67.42 -4998 4998 8.52 82.33 -4998 4998 8.84 77.33 -5038 5038 0.26 76.5 -5038 5038 9.23 71.5 -5244 5244 9.81 70.92 -5244 5244 0.26 65.92 -5372 5372 7.36 62.42 -5582 5582 7.73 55.08 -5582 5582 5.84 50.08 -6127 6127 1.2 59.92 -6127 6127 0.79 54.92 -7546 7546 3.57 52.17 -7613 7613 1.67 47.5 -7954 7954 7.66 24.5 -8083 8083 3.97 77.08 -8083 8083 8.22 72.08 -9211 9211 3.81 55.75 -9491 9491 0.01 30.75 -9685 9685 0.92 74.67 -9685 9685 4.63 69.67 +1504 1504 0.14 62.25 +1504 1504 6 57.25 +1763 1763 2.59 75.08 +1900 1900 8.35 57.08 +1979 1979 5.94 27.17 +2077 2077 1.56 56.42 +3922 3922 8.14 40.92 +3922 3922 7.85 35.92 +4050 4050 7.06 22.08 +4110 4110 2.86 67.08 +4577 4577 8.14 47.67 +4577 4577 9.99 42.67 +4670 4670 7.38 30.75 +4670 4670 1.77 25.75 +4731 4731 8.23 69.08 +4731 4731 8.78 64.08 +5190 5190 1.36 42.25 +5190 5190 9.03 37.25 +5725 5725 5.03 41.17 +5725 5725 7.25 36.17 +6120 6120 5.12 23.67 +7094 7094 2.71 54.25 +7094 7094 4 49.25 +7296 7296 8.66 27.08 +7317 7317 5.54 67.17 +7317 7317 8.77 62.17 +7388 7388 6.08 51.08 +7388 7388 5.05 46.08 +7524 7524 5.05 35.75 +8061 8061 1.17 76.67 diff --git a/test/example-data/phen_input/hba1c.txt b/test/example-data/phen_input/hba1c.txt index 9d7bef1..9632c8d 100644 --- a/test/example-data/phen_input/hba1c.txt +++ b/test/example-data/phen_input/hba1c.txt @@ -1,31 +1,31 @@ FID IID value age insulin_med -1122 1122 13.67 71.92 0 -1122 1122 49.76 66.92 0 -1187 1187 56.27 39.17 0 -2044 2044 38.47 54.83 0 -2044 2044 49.67 49.83 1 -2607 2607 51.51 45.67 0 -2607 2607 56.93 40.67 0 -2695 2695 26.5 68.67 1 -2900 2900 3.84 32.83 0 -3803 3803 37.19 67.42 0 -4998 4998 61.68 82.33 0 -4998 4998 4.97 77.33 0 -5038 5038 33.53 76.5 1 -5038 5038 41.23 71.5 0 -5244 5244 38.05 70.92 1 -5244 5244 36.79 65.92 1 -5372 5372 55 62.42 0 -5582 5582 35.46 55.08 1 -5582 5582 19.27 50.08 1 -6127 6127 47.96 59.92 0 -6127 6127 69.63 54.92 0 -7546 7546 46.51 52.17 1 -7613 7613 37.24 47.5 0 -7954 7954 56.99 24.5 1 -8083 8083 28.46 77.08 1 -8083 8083 30.82 72.08 1 -9211 9211 24.84 55.75 1 -9491 9491 61.79 30.75 1 -9685 9685 19.8 74.67 1 -9685 9685 54.08 69.67 0 +1504 1504 33.73 62.25 1 +1504 1504 57.97 57.25 0 +1763 1763 7.8 75.08 0 +1900 1900 13.53 57.08 1 +1979 1979 8.64 27.17 1 +2077 2077 6.68 56.42 1 +3922 3922 36.55 40.92 0 +3922 3922 60.18 35.92 1 +4050 4050 51.78 22.08 0 +4110 4110 33.78 67.08 0 +4577 4577 17.62 47.67 1 +4577 4577 61.32 42.67 1 +4670 4670 29.28 30.75 0 +4670 4670 3.29 25.75 1 +4731 4731 45.55 69.08 0 +4731 4731 37.58 64.08 0 +5190 5190 60.92 42.25 1 +5190 5190 4.52 37.25 0 +5725 5725 47.36 41.17 0 +5725 5725 37.21 36.17 1 +6120 6120 35.88 23.67 1 +7094 7094 17.78 54.25 1 +7094 7094 11.75 49.25 0 +7296 7296 7.47 27.08 1 +7317 7317 61.39 67.17 0 +7317 7317 28.14 62.17 0 +7388 7388 31.59 51.08 1 +7388 7388 23.09 46.08 0 +7524 7524 15.09 35.75 1 +8061 8061 22.46 76.67 0 diff --git a/test/example-data/phen_input/hdl.txt b/test/example-data/phen_input/hdl.txt index 5dc549a..8b7a4af 100644 --- a/test/example-data/phen_input/hdl.txt +++ b/test/example-data/phen_input/hdl.txt @@ -1,31 +1,31 @@ FID IID value age cholesterol_med -1122 1122 3.21 71.92 1 -1122 1122 2.88 66.92 1 -1187 1187 3.43 39.17 1 -2044 2044 9.4 54.83 0 -2044 2044 0.16 49.83 1 -2607 2607 4.28 45.67 0 -2607 2607 5.61 40.67 0 -2695 2695 2.18 68.67 0 -2900 2900 4.5 32.83 1 -3803 3803 7.71 67.42 0 -4998 4998 9.12 82.33 1 -4998 4998 5.47 77.33 0 -5038 5038 3.38 76.5 1 -5038 5038 5.29 71.5 0 -5244 5244 3.67 70.92 1 -5244 5244 9.27 65.92 0 -5372 5372 9.57 62.42 1 -5582 5582 2.63 55.08 1 -5582 5582 4.61 50.08 1 -6127 6127 0.41 59.92 0 -6127 6127 4.77 54.92 0 -7546 7546 0.65 52.17 1 -7613 7613 0.87 47.5 1 -7954 7954 9.79 24.5 0 -8083 8083 7.46 77.08 0 -8083 8083 8.29 72.08 1 -9211 9211 5.33 55.75 1 -9491 9491 7.78 30.75 1 -9685 9685 0.34 74.67 1 -9685 9685 7.49 69.67 0 +1504 1504 0.02 62.25 0 +1504 1504 0.52 57.25 0 +1763 1763 0.79 75.08 1 +1900 1900 3.48 57.08 1 +1979 1979 8.06 27.17 1 +2077 2077 3.7 56.42 0 +3922 3922 0.98 40.92 1 +3922 3922 5.8 35.92 0 +4050 4050 7.1 22.08 1 +4110 4110 9.12 67.08 0 +4577 4577 4.56 47.67 1 +4577 4577 4.98 42.67 1 +4670 4670 9.5 30.75 1 +4670 4670 2.32 25.75 1 +4731 4731 8.76 69.08 1 +4731 4731 6.15 64.08 0 +5190 5190 4.35 42.25 1 +5190 5190 9.34 37.25 0 +5725 5725 8.44 41.17 0 +5725 5725 2.07 36.17 0 +6120 6120 3.17 23.67 0 +7094 7094 1.06 54.25 0 +7094 7094 6.71 49.25 0 +7296 7296 6.92 27.08 1 +7317 7317 0.65 67.17 0 +7317 7317 5.69 62.17 0 +7388 7388 4.2 51.08 1 +7388 7388 4.86 46.08 1 +7524 7524 4.03 35.75 1 +8061 8061 3.95 76.67 1 diff --git a/test/example-data/phen_input/height.txt b/test/example-data/phen_input/height.txt index 51e5537..fd030dd 100644 --- a/test/example-data/phen_input/height.txt +++ b/test/example-data/phen_input/height.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 138.32 71.92 -1122 1122 140.42 66.92 -1187 1187 92.78 39.17 -2044 2044 144.1 54.83 -2044 2044 184.32 49.83 -2607 2607 73.53 45.67 -2607 2607 45.89 40.67 -2695 2695 150.76 68.67 -2900 2900 179.93 32.83 -3803 3803 228.31 67.42 -4998 4998 206.96 82.33 -4998 4998 43.73 77.33 -5038 5038 137.87 76.5 -5038 5038 18.87 71.5 -5244 5244 216.44 70.92 -5244 5244 74.29 65.92 -5372 5372 105.3 62.42 -5582 5582 164.94 55.08 -5582 5582 70.01 50.08 -6127 6127 71.11 59.92 -6127 6127 97.03 54.92 -7546 7546 71.47 52.17 -7613 7613 108.71 47.5 -7954 7954 28.13 24.5 -8083 8083 53.7 77.08 -8083 8083 186.43 72.08 -9211 9211 234.74 55.75 -9491 9491 107.8 30.75 -9685 9685 23.79 74.67 -9685 9685 50.19 69.67 +1504 1504 74.16 62.25 +1504 1504 221.79 57.25 +1763 1763 197.98 75.08 +1900 1900 20.48 57.08 +1979 1979 130.33 27.17 +2077 2077 192.16 56.42 +3922 3922 195.85 40.92 +3922 3922 211.45 35.92 +4050 4050 180.1 22.08 +4110 4110 178.25 67.08 +4577 4577 171.56 47.67 +4577 4577 227.29 42.67 +4670 4670 143.41 30.75 +4670 4670 189.3 25.75 +4731 4731 209.55 69.08 +4731 4731 157.41 64.08 +5190 5190 213.15 42.25 +5190 5190 170.69 37.25 +5725 5725 222.07 41.17 +5725 5725 177.08 36.17 +6120 6120 246.71 23.67 +7094 7094 174.49 54.25 +7094 7094 196.79 49.25 +7296 7296 90.14 27.08 +7317 7317 116.86 67.17 +7317 7317 125.34 62.17 +7388 7388 197.57 51.08 +7388 7388 248.85 46.08 +7524 7524 147.3 35.75 +8061 8061 241.59 76.67 diff --git a/test/example-data/phen_input/il6.txt b/test/example-data/phen_input/il6.txt index 5f5fe18..f7cc0a6 100644 --- a/test/example-data/phen_input/il6.txt +++ b/test/example-data/phen_input/il6.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 75.93 71.92 -1122 1122 42.41 66.92 -1187 1187 84.57 39.17 -2044 2044 91.73 54.83 -2044 2044 1.39 49.83 -2607 2607 57.87 45.67 -2607 2607 65.82 40.67 -2695 2695 29.07 68.67 -2900 2900 73.96 32.83 -3803 3803 67.23 67.42 -4998 4998 86.65 82.33 -4998 4998 86.74 77.33 -5038 5038 87.06 76.5 -5038 5038 88.47 71.5 -5244 5244 32.89 70.92 -5244 5244 97.87 65.92 -5372 5372 49.99 62.42 -5582 5582 61.79 55.08 -5582 5582 62.08 50.08 -6127 6127 70.04 59.92 -6127 6127 43.36 54.92 -7546 7546 47.87 52.17 -7613 7613 1.74 47.5 -7954 7954 59.71 24.5 -8083 8083 40.74 77.08 -8083 8083 12.58 72.08 -9211 9211 95.77 55.75 -9491 9491 78.91 30.75 -9685 9685 58.88 74.67 -9685 9685 40.4 69.67 +1504 1504 24.64 62.25 +1504 1504 43.16 57.25 +1763 1763 24.43 75.08 +1900 1900 82.33 57.08 +1979 1979 44.15 27.17 +2077 2077 32.85 56.42 +3922 3922 48.78 40.92 +3922 3922 21.67 35.92 +4050 4050 62.36 22.08 +4110 4110 13.33 67.08 +4577 4577 2.16 47.67 +4577 4577 40.14 42.67 +4670 4670 58.47 30.75 +4670 4670 57.35 25.75 +4731 4731 94.17 69.08 +4731 4731 83.62 64.08 +5190 5190 77.99 42.25 +5190 5190 34.38 37.25 +5725 5725 50.35 41.17 +5725 5725 11.6 36.17 +6120 6120 61.64 23.67 +7094 7094 59.24 54.25 +7094 7094 81.86 49.25 +7296 7296 46.91 27.08 +7317 7317 89.78 67.17 +7317 7317 34.24 62.17 +7388 7388 68.39 51.08 +7388 7388 60.41 46.08 +7524 7524 26.27 35.75 +8061 8061 22.18 76.67 diff --git a/test/example-data/phen_input/insulin.txt b/test/example-data/phen_input/insulin.txt index 2da3d0f..e9c68e3 100644 --- a/test/example-data/phen_input/insulin.txt +++ b/test/example-data/phen_input/insulin.txt @@ -1,31 +1,31 @@ FID IID value age insulin_med -1122 1122 94.63 71.92 0 -1122 1122 115.25 66.92 1 -1187 1187 174.04 39.17 1 -2044 2044 171.35 54.83 0 -2044 2044 11.07 49.83 0 -2607 2607 190.72 45.67 0 -2607 2607 66.69 40.67 1 -2695 2695 119.32 68.67 1 -2900 2900 112.7 32.83 0 -3803 3803 179.79 67.42 0 -4998 4998 168.88 82.33 1 -4998 4998 181.21 77.33 0 -5038 5038 25.34 76.5 1 -5038 5038 101.78 71.5 1 -5244 5244 19.85 70.92 1 -5244 5244 102.11 65.92 0 -5372 5372 98.24 62.42 0 -5582 5582 159.39 55.08 0 -5582 5582 12.81 50.08 1 -6127 6127 19.59 59.92 1 -6127 6127 163.58 54.92 0 -7546 7546 169.78 52.17 0 -7613 7613 70.77 47.5 1 -7954 7954 180.5 24.5 0 -8083 8083 112.83 77.08 1 -8083 8083 2.39 72.08 1 -9211 9211 89.13 55.75 0 -9491 9491 80.78 30.75 0 -9685 9685 94.07 74.67 0 -9685 9685 4.19 69.67 1 +1504 1504 76.66 62.25 1 +1504 1504 178.75 57.25 1 +1763 1763 166.83 75.08 1 +1900 1900 10.93 57.08 0 +1979 1979 123.58 27.17 1 +2077 2077 44.42 56.42 0 +3922 3922 18.68 40.92 0 +3922 3922 127.49 35.92 1 +4050 4050 143.93 22.08 0 +4110 4110 162.41 67.08 0 +4577 4577 196.17 47.67 1 +4577 4577 142.49 42.67 0 +4670 4670 152.98 30.75 1 +4670 4670 183.54 25.75 0 +4731 4731 155.33 69.08 0 +4731 4731 106.9 64.08 0 +5190 5190 41.31 42.25 1 +5190 5190 107.62 37.25 0 +5725 5725 26.73 41.17 1 +5725 5725 62.58 36.17 1 +6120 6120 111.21 23.67 1 +7094 7094 44.52 54.25 1 +7094 7094 76.34 49.25 0 +7296 7296 196.85 27.08 0 +7317 7317 85.28 67.17 0 +7317 7317 86.87 62.17 1 +7388 7388 137.06 51.08 0 +7388 7388 98.03 46.08 0 +7524 7524 32.08 35.75 0 +8061 8061 84.04 76.67 1 diff --git a/test/example-data/phen_input/ldl.txt b/test/example-data/phen_input/ldl.txt index cd1ccb7..cfd3b50 100644 --- a/test/example-data/phen_input/ldl.txt +++ b/test/example-data/phen_input/ldl.txt @@ -1,31 +1,31 @@ FID IID value age cholesterol_med -1122 1122 8.56 71.92 0 -1122 1122 1.07 66.92 0 -1187 1187 7.64 39.17 1 -2044 2044 5.09 54.83 0 -2044 2044 7.86 49.83 0 -2607 2607 7.69 45.67 0 -2607 2607 3.13 40.67 0 -2695 2695 8.81 68.67 0 -2900 2900 7.43 32.83 1 -3803 3803 2.03 67.42 1 -4998 4998 2.72 82.33 0 -4998 4998 6.63 77.33 0 -5038 5038 1.32 76.5 0 -5038 5038 2.51 71.5 1 -5244 5244 5.04 70.92 0 -5244 5244 4.05 65.92 1 -5372 5372 0.6 62.42 1 -5582 5582 6.53 55.08 0 -5582 5582 7.77 50.08 1 -6127 6127 6.73 59.92 1 -6127 6127 1.63 54.92 0 -7546 7546 9.95 52.17 0 -7613 7613 9.68 47.5 1 -7954 7954 5.24 24.5 1 -8083 8083 5.02 77.08 0 -8083 8083 3.44 72.08 1 -9211 9211 7.69 55.75 0 -9491 9491 4.86 30.75 0 -9685 9685 9.08 74.67 1 -9685 9685 3.93 69.67 1 +1504 1504 5.52 62.25 0 +1504 1504 3.56 57.25 1 +1763 1763 9.71 75.08 0 +1900 1900 2.34 57.08 0 +1979 1979 9.76 27.17 1 +2077 2077 7.31 56.42 1 +3922 3922 6.93 40.92 1 +3922 3922 2.36 35.92 1 +4050 4050 7.4 22.08 1 +4110 4110 5.67 67.08 1 +4577 4577 5.51 47.67 1 +4577 4577 9.14 42.67 0 +4670 4670 3.81 30.75 1 +4670 4670 9.47 25.75 0 +4731 4731 0.67 69.08 1 +4731 4731 4.54 64.08 0 +5190 5190 5.57 42.25 0 +5190 5190 2.48 37.25 0 +5725 5725 0.29 41.17 0 +5725 5725 8.07 36.17 0 +6120 6120 5.71 23.67 1 +7094 7094 4.83 54.25 1 +7094 7094 4.22 49.25 1 +7296 7296 1.7 27.08 1 +7317 7317 9.92 67.17 0 +7317 7317 1.63 62.17 1 +7388 7388 1.55 51.08 0 +7388 7388 2.87 46.08 1 +7524 7524 2.8 35.75 1 +8061 8061 3.76 76.67 1 diff --git a/test/example-data/phen_input/leptin.txt b/test/example-data/phen_input/leptin.txt index e93da66..f882c3c 100644 --- a/test/example-data/phen_input/leptin.txt +++ b/test/example-data/phen_input/leptin.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 87.24 71.92 -1122 1122 87.26 66.92 -1187 1187 7.81 39.17 -2044 2044 98.25 54.83 -2044 2044 49.37 49.83 -2607 2607 60.71 45.67 -2607 2607 16.97 40.67 -2695 2695 34.81 68.67 -2900 2900 78.33 32.83 -3803 3803 86.4 67.42 -4998 4998 82.77 82.33 -4998 4998 53.24 77.33 -5038 5038 8.82 76.5 -5038 5038 39.42 71.5 -5244 5244 73.62 70.92 -5244 5244 36.32 65.92 -5372 5372 92.69 62.42 -5582 5582 41.18 55.08 -5582 5582 79.35 50.08 -6127 6127 57.45 59.92 -6127 6127 23.43 54.92 -7546 7546 20.66 52.17 -7613 7613 3.47 47.5 -7954 7954 96.17 24.5 -8083 8083 64.97 77.08 -8083 8083 76.04 72.08 -9211 9211 63.1 55.75 -9491 9491 90.19 30.75 -9685 9685 45.73 74.67 -9685 9685 25.94 69.67 +1504 1504 85.4 62.25 +1504 1504 64.75 57.25 +1763 1763 41.08 75.08 +1900 1900 88.43 57.08 +1979 1979 4.12 27.17 +2077 2077 98.07 56.42 +3922 3922 46.16 40.92 +3922 3922 39.5 35.92 +4050 4050 68.92 22.08 +4110 4110 28.42 67.08 +4577 4577 13.75 47.67 +4577 4577 92.91 42.67 +4670 4670 74.01 30.75 +4670 4670 0.09 25.75 +4731 4731 74.07 69.08 +4731 4731 81.7 64.08 +5190 5190 77.53 42.25 +5190 5190 54.72 37.25 +5725 5725 97.67 41.17 +5725 5725 12.03 36.17 +6120 6120 5.18 23.67 +7094 7094 40.61 54.25 +7094 7094 53.51 49.25 +7296 7296 93.85 27.08 +7317 7317 3.05 67.17 +7317 7317 77.88 62.17 +7388 7388 92.58 51.08 +7388 7388 32.18 46.08 +7524 7524 65.88 35.75 +8061 8061 51.4 76.67 diff --git a/test/example-data/phen_input/sbp.txt b/test/example-data/phen_input/sbp.txt index 20405d8..25cf3fe 100644 --- a/test/example-data/phen_input/sbp.txt +++ b/test/example-data/phen_input/sbp.txt @@ -1,31 +1,31 @@ FID IID value age bp_med -1122 1122 80.65 71.92 1 -1122 1122 152.64 66.92 0 -1187 1187 86.08 39.17 1 -2044 2044 228.06 54.83 1 -2044 2044 75.22 49.83 0 -2607 2607 65.04 45.67 0 -2607 2607 129.72 40.67 1 -2695 2695 119.8 68.67 0 -2900 2900 151.02 32.83 1 -3803 3803 31.45 67.42 0 -4998 4998 220.01 82.33 0 -4998 4998 197.97 77.33 1 -5038 5038 222.73 76.5 1 -5038 5038 151.57 71.5 0 -5244 5244 60.87 70.92 0 -5244 5244 213.81 65.92 1 -5372 5372 61.76 62.42 0 -5582 5582 158.23 55.08 0 -5582 5582 72.16 50.08 0 -6127 6127 166.72 59.92 1 -6127 6127 62.19 54.92 1 -7546 7546 48.22 52.17 1 -7613 7613 107.56 47.5 0 -7954 7954 209.9 24.5 1 -8083 8083 184.58 77.08 1 -8083 8083 5.96 72.08 1 -9211 9211 153.81 55.75 0 -9491 9491 170.65 30.75 1 -9685 9685 67 74.67 1 -9685 9685 34.06 69.67 0 +1504 1504 146.53 62.25 1 +1504 1504 208.42 57.25 0 +1763 1763 42.65 75.08 0 +1900 1900 102.35 57.08 0 +1979 1979 19.68 27.17 0 +2077 2077 196.37 56.42 0 +3922 3922 54.66 40.92 1 +3922 3922 104.51 35.92 0 +4050 4050 129.05 22.08 1 +4110 4110 163.79 67.08 0 +4577 4577 209.85 47.67 0 +4577 4577 187.14 42.67 0 +4670 4670 230.24 30.75 0 +4670 4670 178.22 25.75 1 +4731 4731 238.69 69.08 1 +4731 4731 201.98 64.08 0 +5190 5190 1.93 42.25 0 +5190 5190 92.22 37.25 1 +5725 5725 158.49 41.17 1 +5725 5725 13.61 36.17 0 +6120 6120 186.19 23.67 0 +7094 7094 194.49 54.25 0 +7094 7094 124.04 49.25 1 +7296 7296 59.59 27.08 0 +7317 7317 95.94 67.17 0 +7317 7317 199.86 62.17 1 +7388 7388 88.48 51.08 1 +7388 7388 131.51 46.08 0 +7524 7524 107.83 35.75 0 +8061 8061 56.5 76.67 1 diff --git a/test/example-data/phen_input/shbg.txt b/test/example-data/phen_input/shbg.txt index 1647ec4..b372d87 100644 --- a/test/example-data/phen_input/shbg.txt +++ b/test/example-data/phen_input/shbg.txt @@ -1,31 +1,31 @@ FID IID value age hormone_med -1122 1122 20.13 71.92 1 -1122 1122 0.19 66.92 0 -1187 1187 34.33 39.17 1 -2044 2044 240.99 54.83 1 -2044 2044 49.82 49.83 0 -2607 2607 214.73 45.67 1 -2607 2607 168.46 40.67 0 -2695 2695 104.75 68.67 0 -2900 2900 98.15 32.83 1 -3803 3803 195 67.42 1 -4998 4998 206.84 82.33 1 -4998 4998 172.59 77.33 1 -5038 5038 243.27 76.5 0 -5038 5038 273.92 71.5 0 -5244 5244 226.49 70.92 1 -5244 5244 288.21 65.92 0 -5372 5372 162.34 62.42 1 -5582 5582 178.01 55.08 1 -5582 5582 85.25 50.08 1 -6127 6127 122.51 59.92 0 -6127 6127 213.29 54.92 1 -7546 7546 150.49 52.17 0 -7613 7613 227.42 47.5 1 -7954 7954 124.57 24.5 0 -8083 8083 101.04 77.08 0 -8083 8083 7.89 72.08 0 -9211 9211 273.58 55.75 0 -9491 9491 40.6 30.75 0 -9685 9685 245.58 74.67 0 -9685 9685 223.53 69.67 1 +1504 1504 120.22 62.25 1 +1504 1504 69.71 57.25 0 +1763 1763 252.39 75.08 0 +1900 1900 92.89 57.08 0 +1979 1979 259.97 27.17 1 +2077 2077 246.06 56.42 1 +3922 3922 140.57 40.92 1 +3922 3922 59.95 35.92 0 +4050 4050 74.19 22.08 0 +4110 4110 36.66 67.08 1 +4577 4577 46.15 47.67 1 +4577 4577 83.41 42.67 1 +4670 4670 203.57 30.75 1 +4670 4670 117.64 25.75 0 +4731 4731 100.67 69.08 1 +4731 4731 122.21 64.08 1 +5190 5190 108.87 42.25 1 +5190 5190 245.12 37.25 0 +5725 5725 259.11 41.17 0 +5725 5725 277.76 36.17 1 +6120 6120 177.64 23.67 0 +7094 7094 26.56 54.25 1 +7094 7094 92.31 49.25 1 +7296 7296 8.09 27.08 0 +7317 7317 80.46 67.17 0 +7317 7317 102.68 62.17 0 +7388 7388 68.12 51.08 1 +7388 7388 50.61 46.08 1 +7524 7524 223.88 35.75 1 +8061 8061 58.49 76.67 0 diff --git a/test/example-data/phen_input/static_covariates.txt b/test/example-data/phen_input/static_covariates.txt index c5674d3..cc09454 100644 --- a/test/example-data/phen_input/static_covariates.txt +++ b/test/example-data/phen_input/static_covariates.txt @@ -1,21 +1,21 @@ FID IID sex yob batch -9685 9685 2 1937 2 -5244 5244 1 1947 2 -2044 2044 1 1945 1 -2607 2607 1 1951 1 -6127 6127 2 1951 2 -5582 5582 2 1928 1 -8083 8083 1 1960 2 -1122 1122 2 1969 2 -4998 4998 2 1965 2 -5038 5038 2 1932 2 -1187 1187 1 1942 2 -9211 9211 2 1924 2 -2695 2695 1 1947 1 -9491 9491 1 1933 1 -7954 7954 1 1959 2 -5372 5372 2 1957 1 -7613 7613 2 1937 1 -3803 3803 2 1927 2 -7546 7546 2 1931 2 -2900 2900 2 1960 1 +7388 7388 2 1926 2 +4670 4670 2 1950 2 +4577 4577 1 1926 2 +3922 3922 2 1939 1 +5725 5725 2 1943 2 +7317 7317 2 1938 2 +1504 1504 2 1961 1 +4731 4731 1 1946 2 +7094 7094 1 1951 1 +5190 5190 1 1939 2 +1979 1979 1 1954 1 +4050 4050 1 1923 2 +4110 4110 1 1937 2 +8061 8061 2 1935 2 +1763 1763 2 1947 2 +7524 7524 1 1932 2 +1900 1900 1 1920 1 +2077 2077 1 1927 2 +7296 7296 1 1963 1 +6120 6120 1 1941 2 diff --git a/test/example-data/phen_input/tb-bmd.txt b/test/example-data/phen_input/tb-bmd.txt index b3359c0..05d36ea 100644 --- a/test/example-data/phen_input/tb-bmd.txt +++ b/test/example-data/phen_input/tb-bmd.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 2.58 71.92 -1122 1122 13.85 66.92 -1187 1187 15.12 39.17 -2044 2044 14.08 54.83 -2044 2044 11.65 49.83 -2607 2607 6.49 45.67 -2607 2607 2.29 40.67 -2695 2695 19.01 68.67 -2900 2900 15.59 32.83 -3803 3803 2.38 67.42 -4998 4998 18.67 82.33 -4998 4998 4.07 77.33 -5038 5038 19.45 76.5 -5038 5038 19.04 71.5 -5244 5244 6.49 70.92 -5244 5244 10.54 65.92 -5372 5372 12.45 62.42 -5582 5582 17.62 55.08 -5582 5582 18.13 50.08 -6127 6127 11.8 59.92 -6127 6127 12.77 54.92 -7546 7546 15.9 52.17 -7613 7613 3.49 47.5 -7954 7954 7.24 24.5 -8083 8083 8.11 77.08 -8083 8083 1.85 72.08 -9211 9211 1.23 55.75 -9491 9491 1.41 30.75 -9685 9685 4.96 74.67 -9685 9685 3.66 69.67 +1504 1504 1.02 62.25 +1504 1504 16.16 57.25 +1763 1763 7.48 75.08 +1900 1900 12.78 57.08 +1979 1979 12.86 27.17 +2077 2077 12.9 56.42 +3922 3922 12.87 40.92 +3922 3922 14.93 35.92 +4050 4050 2.52 22.08 +4110 4110 2.41 67.08 +4577 4577 15.18 47.67 +4577 4577 9.92 42.67 +4670 4670 1.59 30.75 +4670 4670 8.96 25.75 +4731 4731 17.08 69.08 +4731 4731 9.43 64.08 +5190 5190 13.74 42.25 +5190 5190 14.26 37.25 +5725 5725 12.65 41.17 +5725 5725 18.9 36.17 +6120 6120 2.31 23.67 +7094 7094 12.61 54.25 +7094 7094 15.9 49.25 +7296 7296 3.26 27.08 +7317 7317 2.48 67.17 +7317 7317 14.58 62.17 +7388 7388 17.69 51.08 +7388 7388 10.44 46.08 +7524 7524 17.47 35.75 +8061 8061 2.02 76.67 diff --git a/test/example-data/phen_input/testosterone.txt b/test/example-data/phen_input/testosterone.txt index f8683d7..974ec06 100644 --- a/test/example-data/phen_input/testosterone.txt +++ b/test/example-data/phen_input/testosterone.txt @@ -1,31 +1,31 @@ FID IID value age hormone_med -1122 1122 15.25 71.92 1 -1122 1122 39.1 66.92 0 -1187 1187 3 39.17 1 -2044 2044 18.47 54.83 0 -2044 2044 36.48 49.83 0 -2607 2607 4.97 45.67 1 -2607 2607 34.06 40.67 0 -2695 2695 23.05 68.67 1 -2900 2900 42.73 32.83 1 -3803 3803 6.2 67.42 1 -4998 4998 4.05 82.33 0 -4998 4998 41.73 77.33 0 -5038 5038 36.91 76.5 0 -5038 5038 59.08 71.5 1 -5244 5244 54.67 70.92 1 -5244 5244 0.61 65.92 1 -5372 5372 57.33 62.42 0 -5582 5582 32.04 55.08 1 -5582 5582 56.52 50.08 1 -6127 6127 20.91 59.92 0 -6127 6127 39.79 54.92 0 -7546 7546 29.34 52.17 0 -7613 7613 16.69 47.5 0 -7954 7954 52.45 24.5 0 -8083 8083 33.71 77.08 1 -8083 8083 33.42 72.08 1 -9211 9211 43.5 55.75 0 -9491 9491 2.7 30.75 0 -9685 9685 46.47 74.67 0 -9685 9685 18.78 69.67 0 +1504 1504 28.34 62.25 1 +1504 1504 17.87 57.25 0 +1763 1763 36.01 75.08 0 +1900 1900 20.18 57.08 0 +1979 1979 2.23 27.17 1 +2077 2077 32.22 56.42 0 +3922 3922 19.77 40.92 0 +3922 3922 41.52 35.92 0 +4050 4050 38.03 22.08 0 +4110 4110 13 67.08 1 +4577 4577 32.64 47.67 0 +4577 4577 56.93 42.67 1 +4670 4670 47.64 30.75 1 +4670 4670 8.43 25.75 0 +4731 4731 57.21 69.08 1 +4731 4731 17.25 64.08 0 +5190 5190 35.33 42.25 0 +5190 5190 49.47 37.25 1 +5725 5725 56.03 41.17 0 +5725 5725 52.97 36.17 1 +6120 6120 44.98 23.67 1 +7094 7094 21.09 54.25 1 +7094 7094 15.07 49.25 1 +7296 7296 31.71 27.08 0 +7317 7317 9.47 67.17 0 +7317 7317 33.88 62.17 0 +7388 7388 26.91 51.08 0 +7388 7388 41.67 46.08 0 +7524 7524 18.82 35.75 1 +8061 8061 2.41 76.67 1 diff --git a/test/example-data/phen_input/trig.txt b/test/example-data/phen_input/trig.txt index a91fe02..77bd3f7 100644 --- a/test/example-data/phen_input/trig.txt +++ b/test/example-data/phen_input/trig.txt @@ -1,31 +1,31 @@ FID IID value age cholesterol_med -1122 1122 12.32 71.92 0 -1122 1122 1.97 66.92 0 -1187 1187 10.95 39.17 0 -2044 2044 4.61 54.83 1 -2044 2044 5.14 49.83 0 -2607 2607 10.16 45.67 0 -2607 2607 10.34 40.67 0 -2695 2695 16.96 68.67 1 -2900 2900 12.23 32.83 0 -3803 3803 17.15 67.42 0 -4998 4998 2.18 82.33 1 -4998 4998 6.38 77.33 0 -5038 5038 2.23 76.5 1 -5038 5038 15.76 71.5 0 -5244 5244 13.35 70.92 1 -5244 5244 6.49 65.92 1 -5372 5372 19.07 62.42 1 -5582 5582 1.97 55.08 1 -5582 5582 17.02 50.08 0 -6127 6127 12.42 59.92 0 -6127 6127 10.97 54.92 1 -7546 7546 13.04 52.17 1 -7613 7613 18.96 47.5 1 -7954 7954 6.05 24.5 1 -8083 8083 12.46 77.08 0 -8083 8083 15.38 72.08 0 -9211 9211 3.52 55.75 0 -9491 9491 13.29 30.75 1 -9685 9685 0.24 74.67 0 -9685 9685 1.25 69.67 0 +1504 1504 8.17 62.25 1 +1504 1504 9.08 57.25 0 +1763 1763 4.79 75.08 0 +1900 1900 11.35 57.08 0 +1979 1979 10.97 27.17 0 +2077 2077 1.39 56.42 1 +3922 3922 17.26 40.92 0 +3922 3922 1.2 35.92 0 +4050 4050 8.18 22.08 1 +4110 4110 4.55 67.08 0 +4577 4577 14.23 47.67 0 +4577 4577 13.51 42.67 1 +4670 4670 14.56 30.75 1 +4670 4670 18.71 25.75 1 +4731 4731 6.59 69.08 0 +4731 4731 5.32 64.08 0 +5190 5190 14.5 42.25 1 +5190 5190 18.77 37.25 0 +5725 5725 11.18 41.17 0 +5725 5725 16.23 36.17 1 +6120 6120 13.66 23.67 0 +7094 7094 0.31 54.25 1 +7094 7094 13.39 49.25 0 +7296 7296 12.07 27.08 1 +7317 7317 14.83 67.17 1 +7317 7317 19.83 62.17 1 +7388 7388 11 51.08 0 +7388 7388 7.04 46.08 1 +7524 7524 6.32 35.75 0 +8061 8061 17.27 76.67 0 diff --git a/test/example-data/phen_input/vitd.txt b/test/example-data/phen_input/vitd.txt index 4345c60..c72f9d7 100644 --- a/test/example-data/phen_input/vitd.txt +++ b/test/example-data/phen_input/vitd.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 263.78 71.92 -1122 1122 187.75 66.92 -1187 1187 43.92 39.17 -2044 2044 128.1 54.83 -2044 2044 354.37 49.83 -2607 2607 160.48 45.67 -2607 2607 97.6 40.67 -2695 2695 231.43 68.67 -2900 2900 287.43 32.83 -3803 3803 145.83 67.42 -4998 4998 314.61 82.33 -4998 4998 398.35 77.33 -5038 5038 231.97 76.5 -5038 5038 116.37 71.5 -5244 5244 189.85 70.92 -5244 5244 188.82 65.92 -5372 5372 108.36 62.42 -5582 5582 398.55 55.08 -5582 5582 285.99 50.08 -6127 6127 350.93 59.92 -6127 6127 231.48 54.92 -7546 7546 373.4 52.17 -7613 7613 52.57 47.5 -7954 7954 197.7 24.5 -8083 8083 221.19 77.08 -8083 8083 158.43 72.08 -9211 9211 358.44 55.75 -9491 9491 2.3 30.75 -9685 9685 39.39 74.67 -9685 9685 122.92 69.67 +1504 1504 374.13 62.25 +1504 1504 70.36 57.25 +1763 1763 317.63 75.08 +1900 1900 38.76 57.08 +1979 1979 188.78 27.17 +2077 2077 60.51 56.42 +3922 3922 180.39 40.92 +3922 3922 239.54 35.92 +4050 4050 93.93 22.08 +4110 4110 100.97 67.08 +4577 4577 208.04 47.67 +4577 4577 16.73 42.67 +4670 4670 210.25 30.75 +4670 4670 133.39 25.75 +4731 4731 33.96 69.08 +4731 4731 127.64 64.08 +5190 5190 237.94 42.25 +5190 5190 113.21 37.25 +5725 5725 218.8 41.17 +5725 5725 376.75 36.17 +6120 6120 329.15 23.67 +7094 7094 397.39 54.25 +7094 7094 278.25 49.25 +7296 7296 272.57 27.08 +7317 7317 385.21 67.17 +7317 7317 233.27 62.17 +7388 7388 26.41 51.08 +7388 7388 290.79 46.08 +7524 7524 200.22 35.75 +8061 8061 65.28 76.67 diff --git a/test/example-data/phen_input/wc.txt b/test/example-data/phen_input/wc.txt index a0f0b13..7107d91 100644 --- a/test/example-data/phen_input/wc.txt +++ b/test/example-data/phen_input/wc.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 91.57 71.92 -1122 1122 111.01 66.92 -1187 1187 18.77 39.17 -2044 2044 169.86 54.83 -2044 2044 233.77 49.83 -2607 2607 237.73 45.67 -2607 2607 167.14 40.67 -2695 2695 29.86 68.67 -2900 2900 240.38 32.83 -3803 3803 127.58 67.42 -4998 4998 54.24 82.33 -4998 4998 180.92 77.33 -5038 5038 244.96 76.5 -5038 5038 158.64 71.5 -5244 5244 232.16 70.92 -5244 5244 156.6 65.92 -5372 5372 179.09 62.42 -5582 5582 172.87 55.08 -5582 5582 242.43 50.08 -6127 6127 109.17 59.92 -6127 6127 171.91 54.92 -7546 7546 202.49 52.17 -7613 7613 66.59 47.5 -7954 7954 28.56 24.5 -8083 8083 161.32 77.08 -8083 8083 203.4 72.08 -9211 9211 18.07 55.75 -9491 9491 185.66 30.75 -9685 9685 80.6 74.67 -9685 9685 126.76 69.67 +1504 1504 231.64 62.25 +1504 1504 166.67 57.25 +1763 1763 230.37 75.08 +1900 1900 165.17 57.08 +1979 1979 157.61 27.17 +2077 2077 197.86 56.42 +3922 3922 78.76 40.92 +3922 3922 142.38 35.92 +4050 4050 228.34 22.08 +4110 4110 109.06 67.08 +4577 4577 71.97 47.67 +4577 4577 102.15 42.67 +4670 4670 55.53 30.75 +4670 4670 154.97 25.75 +4731 4731 165.47 69.08 +4731 4731 191.01 64.08 +5190 5190 239.28 42.25 +5190 5190 149.17 37.25 +5725 5725 170.96 41.17 +5725 5725 85.85 36.17 +6120 6120 100.99 23.67 +7094 7094 59.73 54.25 +7094 7094 40.48 49.25 +7296 7296 166 27.08 +7317 7317 135.02 67.17 +7317 7317 111.5 62.17 +7388 7388 3.93 51.08 +7388 7388 171.7 46.08 +7524 7524 60.62 35.75 +8061 8061 244.19 76.67 diff --git a/test/example-data/phen_input/whr.txt b/test/example-data/phen_input/whr.txt index 76ff89a..2ae9fc6 100644 --- a/test/example-data/phen_input/whr.txt +++ b/test/example-data/phen_input/whr.txt @@ -1,31 +1,31 @@ FID IID value age -1122 1122 15.65 71.92 -1122 1122 13.27 66.92 -1187 1187 15.22 39.17 -2044 2044 7.42 54.83 -2044 2044 11.87 49.83 -2607 2607 5.64 45.67 -2607 2607 13.92 40.67 -2695 2695 17.72 68.67 -2900 2900 0.93 32.83 -3803 3803 16.89 67.42 -4998 4998 17.33 82.33 -4998 4998 19.64 77.33 -5038 5038 14.32 76.5 -5038 5038 13.24 71.5 -5244 5244 1.28 70.92 -5244 5244 18.55 65.92 -5372 5372 4.06 62.42 -5582 5582 15.88 55.08 -5582 5582 14.81 50.08 -6127 6127 5.04 59.92 -6127 6127 19.72 54.92 -7546 7546 11.65 52.17 -7613 7613 1.58 47.5 -7954 7954 15.12 24.5 -8083 8083 4.15 77.08 -8083 8083 3.17 72.08 -9211 9211 17.47 55.75 -9491 9491 14.17 30.75 -9685 9685 1.1 74.67 -9685 9685 7.98 69.67 +1504 1504 7.6 62.25 +1504 1504 2.58 57.25 +1763 1763 8.93 75.08 +1900 1900 15.47 57.08 +1979 1979 9.45 27.17 +2077 2077 15.61 56.42 +3922 3922 14.74 40.92 +3922 3922 1.79 35.92 +4050 4050 6.61 22.08 +4110 4110 16.5 67.08 +4577 4577 18.6 47.67 +4577 4577 3.86 42.67 +4670 4670 6.62 30.75 +4670 4670 19.15 25.75 +4731 4731 8.54 69.08 +4731 4731 1.73 64.08 +5190 5190 6.53 42.25 +5190 5190 18.75 37.25 +5725 5725 8.82 41.17 +5725 5725 16.26 36.17 +6120 6120 7.19 23.67 +7094 7094 11.24 54.25 +7094 7094 8.92 49.25 +7296 7296 5.33 27.08 +7317 7317 19.47 67.17 +7317 7317 10.54 62.17 +7388 7388 2.32 51.08 +7388 7388 3.83 46.08 +7524 7524 0.66 35.75 +8061 8061 9.77 76.67