Question: cnv-seq reference hit
1
gravatar for dovi
23 months ago by
dovi60
dovi60 wrote:

Hi all,

I've read that CNV-seq needs a reference hit file. Is this reference file the actual reference genome (the one I used to map my reads)? Or I have to pick up one of my samples to be a reference hit file ? (I don't have "treatment/control" samples). In the case that should be the actual reference genome, how do I get the .bam file? I mean, it's the reference genome, it doesn't make sense to map it against itself.

Thanks!

cnv readdepth cnv-seq • 630 views
ADD COMMENTlink modified 23 months ago • written 23 months ago by dovi60
2
gravatar for dovi
23 months ago by
dovi60
dovi60 wrote:

So far my solution was to create a "dummy" reference sample hit that contains all positions as they also do in CNVkit when no "normal" sample is provided.

ADD COMMENTlink written 23 months ago by dovi60
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