IGV: how is "Quality weight allele fraction" calculated?
I'm inspecting raw NGS reads from human using IGV. The allele frequency threshold is kept at the default 0.2.
Yet this is apparently "Quality weight allele fraction" (IGV Preferences) and not regular fraction (e.g. A/[A+C+G+T] ).
Where can I find the formula for this calculation?
Thanks.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
vcftools warnings worrisome?
written by 8armed •
-
Different relatedness estimates by PLINK and VCFTOOLS despite same method
written by 8armed •
-
the color of variant of SNP in IGV
written by charlie •
-
Generating comprehensive data for Promethease and Codegen.eu from WGS
written by Tim •
-
Variant calling on bacterial population using Freebayes gave wrong allele frequency and extremely l…
written by xuye.july •
-
NGS data storage and management
written by olavur
-
Can someone please help? bcftools problem -- [bcf_sync] incorrect number of fields (0 != 5) at 0:0
written by dr.genetics
-
Varscan variant calll error on pacbio data
written by mark.rose •
-
LOH and CNV data from VCF files
written by GarF •
-
Capturing clusters having T to C mutation
written by Varun Gupta
