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Published 20 hours ago • verified publisher icon wdecoster

ID missing from summary file

Open Electrocyte opened this issue 4 years ago • 1 comments

When using Nanofilt with --summary flag, I have an issue with a few run IDs not existing inside the summary file. Would it be possible to either:

  • Skip/discard them from the analysis (and output)
  • Recalculate the quality score for that particular input

Electrocyte avatar May 11 '20 23:05 Electrocyte

Thanks for the suggestion! NanoFilt 2.7.0 (now available on PyPI and soon on bioconda) will now, when using a summary file with a missing read, calculate the quality based on the quality scores (as would happen without a summary file) and just continue. It should still raise a warning, but just a warning, that the identifier was missing.

wdecoster avatar May 12 '20 08:05 wdecoster