Question: Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
0
gravatar for Macspider
22 months ago by
Macspider3.0k
Vienna - BOKU
Macspider3.0k wrote:

Hi all,

How does anyone get the RPB and the PV4 into their VCF file? I can't ask for them in mpileup -t <tags> and I can't ask for them anywhere else (or so I think).

Here are the supported samtools mpileup tags at the moment: http://www.htslib.org/doc/samtools-1.0.html#mpileup

Can someone help me?

call snp mpileup variant rpb • 682 views
ADD COMMENTlink modified 10 months ago by al.bodrug50 • written 22 months ago by Macspider3.0k
2
gravatar for al.bodrug
22 months ago by
al.bodrug50
France
al.bodrug50 wrote:

Here it the latest version of samtools manual: http://www.htslib.org/doc/samtools.html PV4 field disappears.

ADD COMMENTlink written 22 months ago by al.bodrug50
0
gravatar for al.bodrug
10 months ago by
al.bodrug50
France
al.bodrug50 wrote:

Note: PV4 seems to be supported /appear only when you call the variants with -c parameter in bcftools

ADD COMMENTlink modified 8 months ago • written 10 months ago by al.bodrug50
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