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tseemann / snippy

:scissors: :zap: Rapid haploid variant calling and core genome alignment
GNU General Public License v2.0
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Use bcftools-csq instead of snpEff #148

Open tseemann opened 6 years ago

tseemann commented 6 years ago

This will remove the need for snpeff and particularly Java!

Docs: http://www.htslib.org/doc/bcftools.html#csq

Interface:https://github.com/samtools/bcftools/blob/develop/csq.c

Paper: https://www.ncbi.nlm.nih.gov/pubmed/28205675

Maytham85 commented 4 years ago

Dear Tseemann, Respect sir, I got an issue like others (issue 154# etc).. I cant use Snippy with .gbk.. I tried all suggestion but still the mission not done.

Do you have any recent suggestions ?

Best regards Maytham