Mercurial > repos > nick > allele_counts

comparison tests/real-nofilt.csv.out @ 8:411adeff1eec draft

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Handle "." sample columns, update tests to work with BIAS column.
author nick
date Tue, 23 Aug 2016 02:30:56 -0400
parents 31361191d2d2
children 6cc488e11544
comparison
equal deleted inserted replaced
7:a72277535a2c 8:411adeff1eec
1 #SAMPLE CHR POS A C G T CVRG ALLELES MAJOR MINOR MINOR.FREQ.PERC. 1 #SAMPLE CHR POS A C G T CVRG ALLELES MAJOR MINOR MAF BIAS
2 THYROID chr1 246704250 29 0 0 0 29 1 A . 0.0 2 THYROID chr1 246704250 29 0 0 0 29 1 A . 0.0 .
3 THYROID chr1 246704257 0 0 0 71 71 1 T . 0.0 3 THYROID chr1 246704257 0 0 0 71 71 1 T . 0.0 .
4 THYROID chr1 246704268 104 0 0 0 104 1 A . 0.0 4 THYROID chr1 246704268 104 0 0 0 104 1 A . 0.0 .
5 THYROID chr1 246704269 0 0 0 105 105 1 T . 0.0 5 THYROID chr1 246704269 0 0 0 105 105 1 T . 0.0 .
6 THYROID chr1 246704363 0 72 3 0 75 0 C G 0.04 6 THYROID chr1 246704363 0 72 3 0 75 0 C G 0.04 1.36364
7 THYROID chr1 246704437 5 130 0 0 135 0 C A 0.03704 7 THYROID chr1 246704437 5 130 0 0 135 0 C A 0.03704 2.14286
8 THYROID chr1 246707878 0 0 131 0 131 1 G . 0.0 8 THYROID chr1 246707878 0 0 131 0 131 1 G . 0.0 .
9 THYROID chr1 246714587 30 0 43 0 73 2 G A 0.41096 9 THYROID chr1 246714587 30 0 43 0 73 2 G A 0.41096 1.22996
10 THYROID chr1 246729215 1 0 1 88 90 0 T G 0.01111 10 THYROID chr1 246729215 1 0 1 88 90 0 T G 0.01111 11.125
11 THYROID chr1 246729216 1 0 1 90 92 0 T G 0.01087 11 THYROID chr1 246729216 1 0 1 90 92 0 T G 0.01087 9.1
12 THYROID chr1 246729378 16 7 0 0 23 0 A C 0.30435 12 THYROID chr1 246729378 16 7 0 0 23 0 A C 0.30435 .
13 THYROID chr1 246729392 29 0 10 0 39 0 A G 0.25641 13 THYROID chr1 246729392 29 0 10 0 39 0 A G 0.25641 .
14 THYROID chr7 91502881 0 0 0 26 26 1 T . 0.0 14 THYROID chr7 91502881 0 0 0 26 26 1 T . 0.0 .
15 THYROID chr7 91502897 7 36 0 0 43 0 C A 0.16279 15 THYROID chr7 91502897 7 36 0 0 43 0 C A 0.16279 1.79167