infernal_cmscan
Description¶
RNA secondary structure/sequence profiles for homology search and alignment
Keywords: covariance models, RNA, fasta
Installation¶
ebi-metagenomics/infernal/cmscan
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install infernal/cmscan
Tools¶
infernal¶
Infernal is for searching DNA sequence databases for RNA structure and sequence similarities.
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
- |
seqdb |
file | Database of sequences in FASTA format | *.{fasta,fna,fasta.gz,fna.gz} |
covariance_model_database |
file | Folder with Rfam models in .cm file including indexes .i1f, .i1i, .i1m, .i1p | - |
Output¶
| Name | Type | Description | Pattern |
|---|---|---|---|
cmscan_tbl |
file | - | |
versions |
file | - |