Comments (3)
Ok, I had a look on those 2 and i think we should go for metaMATE
From its repo:
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as mentioed here -- "The ideal dataset for metaMATE is a set of ASVs arising from a multi-sample metabarcoding dataset accompanied by a solid set of reference sequences that are expected to be present in the dataset. Optionally, metaMATE can also utilise data assigning each ASV to a taxonomic group."
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In addition, " metaMATE currently cannot process more than 65,536 input ASVs if perfoming clade binning due to the exponential complexity of the UPGMA algorithm."
@cpavloud do you think we have to integrate this for the ARMS project?
from pema.
We could but I don't know how much time it would require.
from pema.
@hariszaf Explain why it's useful.
from pema.
Related Issues (20)
- add remove_singletons option in OTU pipeline HOT 4
- Error when unzipping using a checkpoing HOT 1
- HPC job specifications HOT 4
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- Unexpected Singletons in Final Table despite removeSingletons set to "Yes" HOT 5
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- Needed updates on "PEMA's output files.md" HOT 2
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- pandaseq error "Something is wrong with this ID" HOT 17
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from pema.