# HG changeset patch -- Bitbucket.org # Project galaxy-dist # URL http://bitbucket.org/galaxy/galaxy-dist/overview # User fubar: ross Lazarus at gmail period com # Date 1283378497 14400 # Node ID 4a621d4e127a76467d996fdf25b3a7e1ead4ddb9 # Parent 695a12fec1e2195cf8ccdf80d6d5318a464c37e3 More files for rgQC test outputs to satisfy the buildbot
Binary file test-data/rgtestouts/rgQC/tinywga_All_3x3-0.jpg has changed
Binary file test-data/rgtestouts/rgQC/tinywga_All_Paged-8.jpg has changed
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(0.2) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 199.39 47.52 Tm (0.3) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 241.16 47.52 Tm (0.4) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 282.94 47.52 Tm (0.5) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 324.71 47.52 Tm (0.6) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 366.49 47.52 Tm (0.7) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 408.27 47.52 Tm (0.8) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 450.04 47.52 Tm (0.9) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 491.82 47.52 Tm (1.0) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 533.59 47.52 Tm (1.1) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 575.37 47.52 Tm (1.2) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 617.14 47.52 Tm (1.3) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 658.92 47.52 Tm (1.4) Tj +ET +59.04 89.87 m 59.04 479.32 l S +59.04 89.87 m 51.84 89.87 l S +59.04 145.50 m 51.84 145.50 l S +59.04 201.14 m 51.84 201.14 l S +59.04 256.78 m 51.84 256.78 l S +59.04 312.41 m 51.84 312.41 l S +59.04 368.05 m 51.84 368.05 l S +59.04 423.68 m 51.84 423.68 l S +59.04 479.32 m 51.84 479.32 l S +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 78.19 Tm (0.00) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 133.83 Tm (0.05) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 189.46 Tm (0.10) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 245.10 Tm (0.15) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 300.74 Tm (0.20) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 356.37 Tm (0.25) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 412.01 Tm (0.30) Tj +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 41.76 467.64 Tm (0.35) Tj +ET +59.04 73.44 m +689.76 73.44 l +689.76 516.96 l +59.04 516.96 l +59.04 73.44 l +S +Q q +BT +0.000 0.000 0.000 rg +/F3 1 Tf 14.00 0.00 -0.00 14.00 312.75 541.45 Tm (Log QQ Plot(n=25)) Tj +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 307.75 4.32 Tm [(LogQQ plot Mar) -15 (k) 20 (er HWE)] TJ +ET +BT +/F2 1 Tf 12.00 0.00 -0.00 12.00 319.41 18.72 Tm [(-log10(Unif) 30 (or) -25 (m 0-1))] TJ +ET +BT +/F2 1 Tf 0.00 12.00 -12.00 0.00 12.96 234.19 Tm (QQ log(p) HWE (unaff)) Tj +ET +Q q 59.04 73.44 630.72 443.52 re W n +0.000 0.000 0.000 RG +0.75 w +[] 0 d +1 J +1 j +10.00 M +82.40 89.87 m +264.91 576.00 l +S +0.827 0.827 0.827 RG +0.75 w +[ 0.00 4.00] 0 d +82.40 73.44 m 82.40 516.96 l S +124.18 73.44 m 124.18 516.96 l S +165.95 73.44 m 165.95 516.96 l S +207.73 73.44 m 207.73 516.96 l S +249.50 73.44 m 249.50 516.96 l S +291.28 73.44 m 291.28 516.96 l S +333.05 73.44 m 333.05 516.96 l S +374.83 73.44 m 374.83 516.96 l S +416.61 73.44 m 416.61 516.96 l S +458.38 73.44 m 458.38 516.96 l S +500.16 73.44 m 500.16 516.96 l S +541.93 73.44 m 541.93 516.96 l S +583.71 73.44 m 583.71 516.96 l S +625.48 73.44 m 625.48 516.96 l S +667.26 73.44 m 667.26 516.96 l S +59.04 89.87 m 689.76 89.87 l S +59.04 145.50 m 689.76 145.50 l S +59.04 201.14 m 689.76 201.14 l S +59.04 256.78 m 689.76 256.78 l S +59.04 312.41 m 689.76 312.41 l S +59.04 368.05 m 689.76 368.05 l S +59.04 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--- /dev/null +++ b/test-data/rgtestouts/rgQC/Ranked_Marker_MAF.xls @@ -0,0 +1,11 @@ +snp chromosome offset maf a1 a2 missfrac p_hwe_all logp_hwe_all p_hwe_unaff logp_hwe_unaff N_Mendel +rs12160770 22 21892925 0.01923 1 3 0.075 1 0 1 0 0 +rs2267010 22 21864366 0.03704 3 1 0 1 0 1 0 0 +rs4822363 22 21821000 0.07407 4 2 0 1 0 1 0 0 +rs5759636 22 21868698 0.07407 4 2 0.025 1 0 1 0 0 +rs756632 22 21799918 0.09259 4 2 0 1 0 1 0 0 +rs6003566 22 21889806 0.09259 3 1 0 1 0 1 0 0 +rs16997606 22 21794754 0.1111 1 3 0 1 0 1 0 0 +rs2267013 22 21875879 0.1111 3 1 0 1 0 1 0 0 +rs2256725 22 21892891 0.1111 2 1 0 1 0 1 0 0 +rs5751592 22 21827674 0.1667 4 2 0 1 0 1 0 0
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--- /dev/null +++ b/test-data/rgtestouts/rgQC/Ranked_Marker_HWE.xls @@ -0,0 +1,11 @@ +snp chromosome offset maf a1 a2 missfrac p_hwe_all logp_hwe_all p_hwe_unaff logp_hwe_unaff N_Mendel +rs5751611 22 21896019 0.4615 2 4 0.025 0.4275 0.369064 0.4275 0.369064 0 +rs4820539 22 21807970 0.2778 1 3 0 0.6298 0.200797 0.6298 0.200797 0 +rs2283802 22 21784722 0.2593 4 2 0 0.638 0.195179 0.638 0.195179 0 +rs2267009 22 21860168 0.2593 3 4 0 0.638 0.195179 0.638 0.195179 0 +rs2071436 22 21871488 0.2593 4 2 0 0.638 0.195179 0.638 0.195179 0 +rs762601 22 21898858 0.3333 1 3 0 0.6657 0.176721 0.6657 0.176721 0 +rs2156921 22 21899063 0.3333 3 1 0 0.6657 0.176721 0.6657 0.176721 0 +rs4822375 22 21905642 0.3333 1 3 0 0.6657 0.176721 0.6657 0.176721 0 +rs4820537 22 21794810 0.4444 1 3 0 0.6985 0.155834 0.6985 0.155834 0 +rs2267010 22 21864366 0.03704 3 1 0 1 0 1 0 0
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--- /dev/null +++ b/test-data/rgtestouts/rgQC/Ranked_Marker_Missing_Genotype.xls @@ -0,0 +1,11 @@ +snp chromosome offset maf a1 a2 missfrac p_hwe_all logp_hwe_all p_hwe_unaff logp_hwe_unaff N_Mendel +rs12160770 22 21892925 0.01923 1 3 0.075 1 0 1 0 0 +rs5751611 22 21896019 0.4615 2 4 0.025 0.4275 0.369064 0.4275 0.369064 0 +rs5759636 22 21868698 0.07407 4 2 0.025 1 0 1 0 0 +rs3788347 22 21797804 0.463 3 1 0 1 0 1 0 0 +rs4820537 22 21794810 0.4444 1 3 0 0.6985 0.155834 0.6985 0.155834 0 +rs5759612 22 21833170 0.4259 3 1 0 1 0 1 0 0 +rs5759608 22 21832708 0.4259 2 4 0 1 0 1 0 0 +rs2267000 22 21785366 0.4259 4 2 0 1 0 1 0 0 +rs4822375 22 21905642 0.3333 1 3 0 0.6657 0.176721 0.6657 0.176721 0 +rs2156921 22 21899063 0.3333 3 1 0 0.6657 0.176721 0.6657 0.176721 0
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