Question: RVtests CMC output column definitions
0
gravatar for clyumath
16 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 • 753 views
ADD COMMENTlink modified 15 days ago by zx87546.5k • written 16 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 14 months ago by bibb7750
1

I contacted the developers by email, but no reply.

ADD REPLYlink written 14 months ago by clyumath10

Any luck receiving a reply?

ADD REPLYlink written 12 months ago by ftlin220

Having the same issue, ftlin22?

ADD REPLYlink written 12 months ago by Kevin Blighe37k

unfortunately not yet.

ADD REPLYlink written 12 months ago by clyumath10

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

ADD REPLYlink written 15 days ago by Louisa Pyle20
0
gravatar for Kevin Blighe
16 months ago by
Kevin Blighe37k
Republic of Ireland
Kevin Blighe37k 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 16 months ago by Kevin Blighe37k
0
gravatar for zx8754
15 days ago by
zx87546.5k
London
zx87546.5k 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 15 days ago by zx87546.5k
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