Mercurial > repos > bgruening > nanopolish_methylation
diff test-data/t2-variants.vcf @ 5:12efe2f03697 draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/nanopolish commit dff183f4eb2d3df42917ec4fed0fbdb2ea11e19a"
author | bgruening |
---|---|
date | Fri, 29 May 2020 13:30:11 -0400 |
parents | 02e3c674d917 |
children |
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--- a/test-data/t2-variants.vcf Sun Jun 23 05:54:36 2019 -0400 +++ b/test-data/t2-variants.vcf Fri May 29 13:30:11 2020 -0400 @@ -2,10 +2,14 @@ ##nanopolish_window=tig00000001:198000-202000 ##INFO=<ID=TotalReads,Number=1,Type=Integer,Description="The number of event-space reads used to call the variant"> ##INFO=<ID=SupportFraction,Number=1,Type=Float,Description="The fraction of event-space reads that support the variant"> +##INFO=<ID=SupportFractionByStrand,Number=2,Type=Float,Description="Fraction of event-space reads that support the variant for each strand"> ##INFO=<ID=BaseCalledReadsWithVariant,Number=1,Type=Integer,Description="The number of base-space reads that support the variant"> ##INFO=<ID=BaseCalledFraction,Number=1,Type=Float,Description="The fraction of base-space reads that support the variant"> ##INFO=<ID=AlleleCount,Number=1,Type=Integer,Description="The inferred number of copies of the allele"> -##INFO=<ID=SupportFractionByBase,Number=4,Type=Integer,Description="The fraction of reads supporting A,C,G,T at this position"> +##INFO=<ID=StrandSupport,Number=4,Type=Integer,Description="Number of reads supporting the REF and ALT allele, by strand"> +##INFO=<ID=StrandFisherTest,Number=1,Type=Integer,Description="Strand bias fisher test"> +##INFO=<ID=SOR,Number=1,Type=Float,Description="StrandOddsRatio test from GATK"> +##INFO=<ID=RefContext,Number=1,Type=String,Description="The reference sequence context surrounding the variant call"> +##INFO=<ID=SupportFractionByBase,Number=4,Type=Float,Description="The fraction of reads supporting A,C,G,T at this position"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample -tig00000001 198435 . G A 22.3 PASS BaseCalledReadsWithVariant=10;BaseCalledFraction=0.238095;TotalReads=42;AlleleCount=1;SupportFraction=0.388965;SupportFractionByBase=0.210,0.030,0.718,0.041 GT 0/1