Mercurial > repos > nick > allele_counts
diff tests/real-nofilt.csv.out @ 8:411adeff1eec draft
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 |
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--- a/tests/real-nofilt.csv.out Wed Dec 09 11:37:02 2015 -0500 +++ b/tests/real-nofilt.csv.out Tue Aug 23 02:30:56 2016 -0400 @@ -1,15 +1,15 @@ -#SAMPLE CHR POS A C G T CVRG ALLELES MAJOR MINOR MINOR.FREQ.PERC. -THYROID chr1 246704250 29 0 0 0 29 1 A . 0.0 -THYROID chr1 246704257 0 0 0 71 71 1 T . 0.0 -THYROID chr1 246704268 104 0 0 0 104 1 A . 0.0 -THYROID chr1 246704269 0 0 0 105 105 1 T . 0.0 -THYROID chr1 246704363 0 72 3 0 75 0 C G 0.04 -THYROID chr1 246704437 5 130 0 0 135 0 C A 0.03704 -THYROID chr1 246707878 0 0 131 0 131 1 G . 0.0 -THYROID chr1 246714587 30 0 43 0 73 2 G A 0.41096 -THYROID chr1 246729215 1 0 1 88 90 0 T G 0.01111 -THYROID chr1 246729216 1 0 1 90 92 0 T G 0.01087 -THYROID chr1 246729378 16 7 0 0 23 0 A C 0.30435 -THYROID chr1 246729392 29 0 10 0 39 0 A G 0.25641 -THYROID chr7 91502881 0 0 0 26 26 1 T . 0.0 -THYROID chr7 91502897 7 36 0 0 43 0 C A 0.16279 +#SAMPLE CHR POS A C G T CVRG ALLELES MAJOR MINOR MAF BIAS +THYROID chr1 246704250 29 0 0 0 29 1 A . 0.0 . +THYROID chr1 246704257 0 0 0 71 71 1 T . 0.0 . +THYROID chr1 246704268 104 0 0 0 104 1 A . 0.0 . +THYROID chr1 246704269 0 0 0 105 105 1 T . 0.0 . +THYROID chr1 246704363 0 72 3 0 75 0 C G 0.04 1.36364 +THYROID chr1 246704437 5 130 0 0 135 0 C A 0.03704 2.14286 +THYROID chr1 246707878 0 0 131 0 131 1 G . 0.0 . +THYROID chr1 246714587 30 0 43 0 73 2 G A 0.41096 1.22996 +THYROID chr1 246729215 1 0 1 88 90 0 T G 0.01111 11.125 +THYROID chr1 246729216 1 0 1 90 92 0 T G 0.01087 9.1 +THYROID chr1 246729378 16 7 0 0 23 0 A C 0.30435 . +THYROID chr1 246729392 29 0 10 0 39 0 A G 0.25641 . +THYROID chr7 91502881 0 0 0 26 26 1 T . 0.0 . +THYROID chr7 91502897 7 36 0 0 43 0 C A 0.16279 1.79167