Add additional binners

[d4straub]

Description of feature

I am going to add some more binning tools because there seem to be very well performing binners that are not yet in this pipeline.

Currently there are 3 binners in nf-core/mag: MetaBAT2, MaxBin2, CONCOCT. In case several binners are used, bins are refined with DAS Tool.

In the CAMI 2 challenge, binners (among other tools) were benachmarked and the best performing ones were implemented into a fork of nf-core/mag (https://github.com/hzi-bifo/mag). The binners added are: MetaBinner and MetaWRAP. Additionally, UltraBinner 1 performs well.

Additionally, the benchmarking website of CAMI 2 allows continuous submission of results and evaluation. Since the publication two new binners that perform very well have been listed, see here (accessed 6th Oct 25). The binners are COMEBin & COMEBERT-2 / COMBERT-S.

Comments/discussion here or in nf-core/slack welcome.

The following (main) nf-core modules seem helpful on first glance:

• CLAME: https://nf-co.re/modules/clame/
• COMEBin: https://nf-co.re/modules/comebin_runcomebin/
• SemiBin: https://nf-co.re/modules/semibin_singleeasybin/
• VAMB: https://nf-co.re/modules/vamb_bin/

Considered binners without nf-core modules

• MetaBinner with module template
• MetaWRAP with module template but seems extremely unwieldy
• UltraBinner seems to wrap several binning tools, no conda
• COMEBERT seems to be a marginally improved mod of COMEBin that is available as conda yml

Tentative prioritization:

1. COMEBin
2. MetaBinner
3. SemiBin

The following is planned:

• implement binners one by one to nf-core/mag (potentially via nf-core/modules)