According to the checkv.nf there are several calls to checkv's functionality. However, I am only getting the final summary stats for quality in the <prefix>_contigs_quality_summary.tsv .
The rest of the tsvs and viruses.fna can be traced back to the workdir of the checkv_wf job, but this seems a bit convoluted and not secure - I like to remove the workdir after a complete execution since it grows big.
These files can be quite helpful if one is interested in finding regions, prophages etc.
I believe it would make sense to also bundle them together in a results/raw_data/checkv_results_<prefix>.tar.gz, similar to the rest of the tools output.
Hello,
According to the
checkv.nf
there are several calls to checkv's functionality. However, I am only getting the final summary stats for quality in the<prefix>_contigs_quality_summary.tsv
.The rest of the
tsv
s andviruses.fna
can be traced back to the workdir of thecheckv_wf
job, but this seems a bit convoluted and not secure - I like to remove the workdir after a complete execution since it grows big.These files can be quite helpful if one is interested in finding regions, prophages etc.
I believe it would make sense to also bundle them together in a
results/raw_data/checkv_results_<prefix>.tar.gz
, similar to the rest of the tools output.