bcftools mpileup for variant calling from nanopore long read sequences

samtools / bcftools

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

http://samtools.github.io/bcftools/

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bcftools mpileup for variant calling from nanopore long read sequences #2156

Closed emilydolivo97 closed 2 months ago

emilydolivo97 commented 2 months ago

Hello,

I have sequenced a single gene using naopore minion sequencer, aligned the reference genome, and I now want to call variants. can I use bcftools mpileup ?

thank you !!

pd3 commented 2 months ago

Yes, it is, check the bcftools mpileup -X ont or bcftools mpileup -X ont-sup option.