Output contigs in GFA format?

[iqbal-lab]

Any plans to output your actual contigs in GFA?

[noporpoise]

It might be easier to 'map' a contig onto a GFA graph, since contigs should match unitigs perfectly. It just needs a hash of first & last kmers of each unitig mapping to unitig id.

Out of curiousity, what's the use case? I could throw together a script at some point.

[iqbal-lab]

Use-case = that GFA represents your final assembly graph. You take your links+DBG and infer contigs,
plus at the end of each contig you have edges, and the string graph consisting of those contigs + edges is your final assembly.