Add dereplication with dRep

[erikrikarddaniel]

Description of feature

dRep takes a set of genomes, with CheckM data, and dereplicates them to produce a set of non-overlapping genomes at a specified ANI. As this is basically just pointing to certain MAGs as the representatives of clusters, the output could possibly be summarised by a column in the bin summary table: dRep. If the column says e.g. 95 and hence indicates the ANI, one could potentially run dRep multiple times. There is no existing nf-core module.

[jfy133]

I also know of: https://github.com/wwood/galah that might do something similar

[prototaxites]

I have a module for Galah that I wrote for a personal pipeline processing the output of mag, as well as a process that takes the busco_summary.tsv file and converts it to the format required by Galah to use the completeness/contamination information.

I had planned to add them to mag at some point, but haven't found time yet.

[jfy133]

🎉 awesome!

[prototaxites]

nf-core/modules#3666

[jfy133]

Requires:

• new module: DREP_DEREPLICATE modules#5591
• new module: DREP_COMPARE modules#5590