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-M --maximum-length info in documentation

See original GitHub issue

Hi there, thanks for the great tool 😃

The docs read for -M:

–maximum-length LENGTH or -M LENGTH Discard processed reads that are longer than LENGTH. Reads that are too long even before adapter removal are also discarded.

I think maybe this was just an accidental copy/alteration of the -m min-length (where that seems intuitive), but that doesn’t seem to be the case for the max setting as reads too long before but under -M after trimming are retained (as i think would be desired). At least as late as version 2.3, toy example below.

Thanks again!

First sequence is 16 bps before trimming, 11 after ; Second sequence is 15 before trimming, 10 after: image

No max set, both through just fine of course: image

Max = 10 set, even though they are both too long before trimming, one is 10 after trimming, and that one makes it through: image

Issue Analytics

  • State:closed
  • Created 4 years ago
  • Comments:5 (4 by maintainers)

github_iconTop GitHub Comments

1reaction
marcelmcommented, Nov 16, 2019

And thanks for the report!

0reactions
marcelmcommented, Nov 17, 2019

That’s now also fixed, thanks!

Read more comments on GitHub >

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