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marbl / canu

A single molecule sequence assembler for genomes large and small.
http://canu.readthedocs.io/
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gfa to contig #1567

Closed fergsc closed 4 years ago

fergsc commented 4 years ago

Hi,

Is there anyway to work out which knote in the genome graph (unitigging/4-unitigger/blah.contigs.gfa) creates which contig in the final fasta.

Thanks.

skoren commented 4 years ago

I am not sure I understand what you're asking. The gfa you mention, unitigging/4-unitigger/ is an intermediate output, you should use the one produced in the top-level of the folder. However, both of those files have the same IDs as the records in the contigs fasta file.

For unitigs, you have the bed file which tells you the unitigs making up each contig.