Question: Harvest : indels identification
gravatar for Lee
3.0 years ago by
Lee0 wrote:

I am looking for insertion and deletion in my dataset with Parsnp and Harvesttools from Harvest. My question is I have SNP information in VCF output file but no indels information. My command is:

Harvest-Linux64-v1.1.2/parsnp -r <reference genome> -d <input dir> -p 32 -o <out dir> -c -x

Harvest-Linux64-v1.1.2/harvesttools -x <xmfa from parsnp> -f <reference genome> \
  -n <tree from parsnp> -V <vcf output>
sequence snp next-gen genome gene • 657 views
ADD COMMENTlink modified 3.0 years ago by h.mon29k • written 3.0 years ago by Lee0
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