Is it possible to get the path of genome in GFA format file?

[zwh82]

Hi,
I test ggcat with two similar genomes. From new version, I can get the GFA format file. But it only contains node information. I would like to know if it is possible to obtain edge connectivity information and the most important genomic pathways, just like standard GFA spec format files.

Best
Wenhai

[Guilucand]

Hi, yes you can obtain edge connectivity information with the -e or --generate-maximal-unitigs-links flag.
This will emit link information using gfa L fields

Andrea

[alexandrutomescu]

@Guilucand: Should we also add this info next to the description of the argument
-h, --gfa Output the graph in GFA format ?