Full Maf to VCF support
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bo...@sheffield.ac.uk
Apr 27, 2017, 12:30:20 PM4/27/17
to MafFilter
Greetings,
As maffilter has the option to extract the SNPs and output them to VCF, I think it would be very useful if there was an option to output all of the positions of the alignment in addition to the position of the SNPs and as such to have the full vcf file!
Cheers
As maffilter has the option to extract the SNPs and output them to VCF, I think it would be very useful if there was an option to output all of the positions of the alignment in addition to the position of the SNPs and as such to have the full vcf file!
Cheers
Julien Yann Dutheil
Apr 28, 2017, 8:01:41 AM4/28/17
to MafFilter
Hi,
This option actually exists, but is not yet fully tested. VcfOutput can take an additional argument all=yes to output all positions in the alignment. You would need to compile the latest version of MafFilter and the Bio++ libraries from their respective git repository. Feedback will be welcome!
Best,
Julien.
This option actually exists, but is not yet fully tested. VcfOutput can take an additional argument all=yes to output all positions in the alignment. You would need to compile the latest version of MafFilter and the Bio++ libraries from their respective git repository. Feedback will be welcome!
Best,
Julien.
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