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EddyRivasLab / easel

Sequence analysis library used by Eddy/Rivas lab code
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esl-reformat mixed gaps error #42

Closed marceloqla closed 4 years ago

marceloqla commented 4 years ago

Hello, when converting a Pfam file containing mixed Gaps to the a2m format using esl-reformat I noticed that gaps as dots were ignored and not included in the final file. Is this an intended feature?

Sorry for bothering and thanks for the attention

cryptogenomicon commented 4 years ago

That's how ('dotless') A2M format works - no dots. See HMMER Userguide for a description of A2M format, or https://compbio.soe.ucsc.edu/a2m-desc.html. If you want aligned FASTA instead, that's afa.