Sentieon

[chrispyatt]

NA12878.AlignmentStat_metrics.txt
NA12878.GCBias_metrics.txt
NA12878.InsertSize_metrics.txt

• This comment contains a description of changes (with reason) - New Sentieon module added to catch output from Sentieon DNASEQ tools (the output has a modified header which is not caught by the picard module even with appropriate config).
• CHANGELOG.md has been updated

• There is example tool output for tools in the https://github.com/ewels/MultiQC_TestData repository or attached to this PR
• Code is tested and works locally (including with --lint flag) -- throws warning about sentieon being found in installed modules but not README.md, but it definitely is in README.md so I can't work out the source of this error.
• docs/README.md is updated with link to below
• docs/modulename.md is created
• Everything that can be represented with a plot instead of a table is a plot
• Report sections have a description and help text (with self.add_section)
• There aren't any huge tables with > 6 columns (explain reasoning if so)
• Each table column has a different colour scale to its neighbour, which relates to the data (eg. if high numbers are bad, they're red)
• Module does not do any significant computational work

[ewels]

Many thanks for this! I added a couple of minor tweaks and fixed the merge conflict. But generally I thought that the code looked great and seems to work well 👍🏻

Sorry for the delay in reviewing & merging, thanks for the new module! 🚀