FastQC: add top overrepresented sequences table #2075
Conversation
|
🚀 Deployed on https://mqc-pr-2075--multiqc.netlify.app |
|
How about having a third column that shows the read count as a percentage of the total read count across all samples? |
That's going to always be close to zero, not sure if a column like this is helpful 🤔 Though maybe it is, as it just means that everything is okay? Maybe I should add another column with the max percentage across samples, to quickly identify the bad sequence in a bad sample. |
vladsavelyev
changed the title
|
@multiqc-bot changelog |
|
@multiqc-bot fix linting |
Could be nice, but might be approaching overkill a little. I think I'm happy to merge as-is for now, can wait to see if we get any feedback about this and always add it at a later date. |
|
@multiqc-bot fix linting |
|
Added a commit to fix https://github.com/ewels/MultiQC/pull/2082/files#r1340743794 |
* master: Just run CI on the oldest + newest supported Python versions (MultiQC#2074) Picard: fix parsing mixed strings/numbers, account for trailing tab (MultiQC#2083) FastQC: add top overrepresented sequences table (MultiQC#2075) Add GitHub Actions bot workflow to fix code linting from a PR comment (MultiQC#2082) Use custom exception type instead of `UserWarning` when no samples are found. (MultiQC#2049) Lint modules for missing `self.add_software_version` (MultiQC#2081) Changelog bot: Update docs (MultiQC#2077) Changelog action: remove `.capitalize()`, add changelog entry (MultiQC#2080) Add action to populate the change log from PR titles triggered by `@multiqc-bot changelog` (MultiQC#2025) # Conflicts: # CHANGELOG.md # multiqc/modules/ngsderive/ngsderive.py
Fix #926
Add a table into the FastQC module showing the most common overrepresented sequences across all samples:
By default, it shows top 20 sequences occurring in the most number of samples. The number can be customised:
It can also be customised to rank sequences by the total number of occurrences instead of the number of samples: