Question: VarScan on Galaxy
gravatar for galmoran
3.5 years ago by
galmoran0 wrote:

Hi All

ive been trying to use varsacn on my pileup file in Galaxy

 in the results, i get "N" in the reference column 
I guess that it probably has something to do with the way the chromosomes are specified in the fasta of teh hg19 and in my data.
  how can i see teh reference fasta file that is used by VarScan in Galaxy?
Or - do you ahve any other idea of why i get the Ns as the reference?


Many Thanks for your help




varscan • 757 views
ADD COMMENTlink written 3.5 years ago by galmoran0
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