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GFA files in skesa #174

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lskatz opened this issue Aug 11, 2023 · 0 comments
Open

GFA files in skesa #174

lskatz opened this issue Aug 11, 2023 · 0 comments

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@lskatz
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lskatz commented Aug 11, 2023

SKESA can now make GFA files and so I wonder if you want to have this step in the pipeline if someone chooses --assembler skesa?

This is the command that seems to have worked for me. This is using a command in the skesa package.

gfa_connector --cores 8 --reads ../../../../2010EL-1786_1.fastq.gz --reads ../../../../2010EL-1786_2.fastq.gz --use_paired_ends --contigs contigs.fa > contigs.gfa
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