Hi all,

I checked the Nanopore basecalled reads using MinION QC tool. From what I've understand, I need to select only the reads which are passed the N50 value. MinION QC gives the information only. Now how to select those passed reads from the data. Which tool to be used to select the best quality reads and to trim?
I am not a bioinformatician. But trying to become one.
You may be [able to use][1] `nanofilt` which is part of a suite of tools called `nanopack` written by @Wouter DeCoster. If you have not used these tools before you may want to get the [full suite][2].

Note: Trimming and filtering are two different operations. Since title of your post says trimming, you may be able to use other trimmers (`bbduk.sh` from BBMap suite, trimmomatic etc) for that analysis.

  [1]: https://github.com/wdecoster/nanofilt
  [2]: https://github.com/wdecoster/nanopack