Question: Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
0
gravatar for Macspider
12 months ago by
Macspider2.8k
Vienna - BOKU
Macspider2.8k 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 • 384 views
ADD COMMENTlink modified 8 days ago by al.bodrug50 • written 12 months ago by Macspider2.8k
2
gravatar for al.bodrug
12 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 12 months ago by al.bodrug50
0
gravatar for al.bodrug
8 days ago by
al.bodrug50
France
al.bodrug50 wrote:

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

ADD COMMENTlink written 8 days ago by al.bodrug50
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