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FelixKrueger / SNPsplit

Allele-specific alignment sorting
http://felixkrueger.github.io/SNPsplit/
GNU General Public License v3.0
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PrepareGenome input #39

Closed nservant closed 4 years ago

nservant commented 4 years ago

Hi, Idea of improvment ; Would be great if SNPsplit_genome_preparation could either take a folder or a fasta file directly in input. Cheers N

FelixKrueger commented 4 years ago

Can I quickly follow this up. At the moment, you specify a folder and the genome preparation will then try to identify .fa files within that folder. Are you suggesting an option to specify a .fa file directly (presumably to avoid confusion if there are several different files in a folder?).

I'd be reluctant to change this behaviour to be honest as I'd like to keep it consistent across the various programs that handle it this way (e.g. Bismark, coverage2cytosine, bam2nuc, reStrainingOrder etc...). Would you agree?

nservant commented 4 years ago

ok I understand. That's fine. N