Collect tool citations

[ewels]

It would be nice if there was a clear citation for specific tools in MultiQC so that users benefiting from somalier or peddy output could (be reminded to) cite the tool(s) they are using in addition to MultiQC.

Originally posted by @brentp in #1155 (comment)

[ewels]

Suggestions for how this could be rendered in the report are welcome!

[ewels]

I think that this would be best done by adding in a new optional argument to BaseMultiqcModule called doi. This can then be added into self.intro if it is set, using a doi.org URL:

https://github.com/ewels/MultiQC/blob/29bccd8c0d71149e4e2b18a0e95621177f92298b/multiqc/modules/base_module.py#L64-L65

[ewels]

As a bonus, would also be nice to save a citations file into multiqc_data with all of the citation info collected into one location. Could think about various formats for this.

Would be nice to include bonus content about the manuscripts, but that will require an internet connection so it must be an add on that does not degrade performance if not available. Would be fun to be able to get a pop-over when hovering on the DOI with the manuscript title / Dimensions.ai badge etc. But that's low priority compared to the rest.

[ewels]

@brentp - thanks again for the original suggestion, this is now implemented and merged. It'll be generally available in the next release. Let me know if you have any feedback or suggestions!

[brentp]

wow! excellent work!