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Output Circularity Status for All Assemblies

Open schorlton opened this issue 2 years ago • 0 comments

Is your feature request related to a problem? Please describe. For generic questions use Q&A section in the Discussions forum above.

Thanks for amazing sofware. I'm doing some post-processing of assemblies requiring circularity status. I see that plasmidSPAdes outputs circularity status in FASTA headers, but the other forms of SPAdes do not.

Describe the solution you'd like

Would it be possible for all SPAdes versions to output this tag in the FASTA header? It looks like there is already a function to detect circular scaffolds? https://github.com/ablab/spades/blob/edd9ffee06f6900c261e5761ee69e2559637bb52/assembler/src/projects/spades/contig_output_stage.cpp#L46

Describe alternatives you've considered

Extract circularity status from GFA

Additional context

No response

schorlton avatar Oct 18 '21 18:10 schorlton