Question: Similarity between reference files
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gravatar for banerjeeshayantan
13 months ago by
banerjeeshayantan110 wrote:

I have generated a consensus sequence of a bam file using

samtools mpileup -uf /media/shayantanbanerjee/disk21/Ref/hg38.fa stjude.bam | bcftools call -c | vcfutils.pl vcf2fq > cns_stjude.fq

Now I want to find how close this file is to the human reference hg38.fa. How can I do that? I am looking for a tool that outputs some x% similarity between the two files.

sequencing assembly • 275 views
ADD COMMENTlink modified 13 months ago by genomax68k • written 13 months ago by banerjeeshayantan110
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