FASTG or GFA input/output

Open ctb opened this issue 9 years ago • 2 comments

After #1371 (compact De Bruijn graph work) and #1372 etc. (assembly), can we now input/output FASTG or GFA? See Twitter conversation here.

Also, what about abyss internal format - worth looking into?

Oct 01 '16 14:10 ctb

Ref #726.

Oct 04 '16 13:10 ctb

:+1: for GFA

The ABySS Graphviz format is documented at https://github.com/bcgsc/abyss/wiki/ABySS-File-Formats#dot I like it because it's compatible with the family of Graphviz tools including visualization with dot, and transformation with gvpr, which is like awk for graphs. I'm happy to answer any questions about it.

Jun 16 '17 21:06 sjackman