mgnifypipelinestoolkit_rheachebiannotation
Description¶
Use diamond output file to create a table with Rhea and CHEBI reaction annotation for every protein
Pipelines¶
This module is used by the following pipelines:
Installation¶
ebi-metagenomics/mgnifypipelinestoolkit/rheachebiannotation
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install mgnifypipelinestoolkit/rheachebiannotation
Tools¶
mgnifypipelinestoolkit¶
Collection of scripts and tools for MGnify pipelines
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] |
- |
fasta |
file | Proteins fasta file (it can be compressed) | *.{faa,fasta} |
diamond_tsv |
file | TSV hits from Diamond against the post-processed UniProt90 + Rhea from the MGnify ref-dbs pipeline. It can be compressed. | *.tsv |
rhea2chebi |
file | TSV file that maps rhea_ids to CHEBI, this file is available along the other MGnify Pipelines ref-dbs. | *.tsv |
Output¶
| Name | Type | Description | Pattern |
|---|---|---|---|
proteins2rhea_tsv |
file | - | |
versions |
file | - |
