Hi Dave,
On Thu, 2015-01-22 at 11:59 +0100, David wrote: > Dear list, > > what is the meaning of QS field after DP field in a vcf file? QC is a normalized sum of qualities for each allele which is used for calling by "bcftools -m". This tag should be considered internal to samtools/bcftools calling and shouldn't be relied upon as it can change without warning. http://samtools.github.io/bcftools/call-m.pdf > This is something we have just discovered, but the field is not > defined in the header section. Which samtools version introduced this > field? We are using 0.1.19-44428cd version and we have found out that > it is sometimes produced and not other times when the analysis is run > in different computers with same software. It was introduced in 0.1.19 (I think). If you say that sometimes it is produced and sometimes not, then there must be several versions of the software installed on your computers. (Note that for calling one should always make sure that both programs are from the same distribution.) All recent versions of samtools define the tag in the header. Hope this helps, Petr > > Thanks > > Dave -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. ------------------------------------------------------------------------------ New Year. New Location. New Benefits. New Data Center in Ashburn, VA. GigeNET is offering a free month of service with a new server in Ashburn. Choose from 2 high performing configs, both with 100TB of bandwidth. Higher redundancy.Lower latency.Increased capacity.Completely compliant. http://p.sf.net/sfu/gigenet _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
