Question: RVtests CMC output column definitions
0
gravatar for clyumath
22 months ago by
clyumath10
clyumath10 wrote:

When running CMC test, the output has NumVar, NumPolyVar, and NonRefSite. What do they mean?

sequencing snp next-gen rvtests • 1.0k views
ADD COMMENTlink modified 6 months ago by zx87547.9k • written 22 months ago by clyumath10

Hello, I have the same question and I posted it in the github webpage (https://github.com/zhanxw/rvtests/issues/50) but no answer yet. Have you figured that out?

ADD REPLYlink written 20 months ago by bibb7780
1

I contacted the developers by email, but no reply.

ADD REPLYlink written 20 months ago by clyumath10

Any luck receiving a reply?

ADD REPLYlink written 18 months ago by ftlin220

Having the same issue, ftlin22?

ADD REPLYlink written 18 months ago by Kevin Blighe46k

unfortunately not yet.

ADD REPLYlink written 18 months ago by clyumath10

Did anyone get an answer to this? Having the same issue.

ADD REPLYlink written 6 months ago by Louisa Pyle20
0
gravatar for Kevin Blighe
22 months ago by
Kevin Blighe46k
Kevin Blighe46k wrote:

I would contact the developers in order to find out and to be sure: https://github.com/zhanxw/rvtests#feedbackcontact

It is not expressly stated what these output values represent.

ADD COMMENTlink written 22 months ago by Kevin Blighe46k
0
gravatar for zx8754
6 months ago by
zx87547.9k
London
zx87547.9k wrote:

From searching their repo, they mean:

  • NumVar: number of variants in the gene(or site)
  • NumPolyVar: number of Polymorphic Genotypes
  • NonRefSite: non-reference site, genotype is not exactly 0.0

Related GitHub issue #50

ADD COMMENTlink written 6 months ago by zx87547.9k
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