nf-core/infernal/cmsearch @ 0.0.0-6c4ed3a
Summary
Search covariance models against a sequence database
Get started
Add the following snippet to your workflow script to include this module.
include { INFERNAL_CMSEARCH } from 'nf-core/infernal/cmsearch'
License
MIT License
Name
|
INFERNAL_CMSEARCH |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
cmfile
file
|
A calibrated Infernal covariance model file |
seqdb
file
|
A FASTA file of sequences to search the covariance models against. Can be gzipped. |
write_align
boolean
|
Flag to save optional alignment output in Stockholm format. Specify with 'true' to save. |
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write_target
boolean
|
Flag to save optional per target summary in a tabular format. Specify with 'true' to save. |
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output
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.txt.gz
file
|
Human readable output summarizing hmmsearch results *.{txt.gz}
|
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
alignments
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.sto.gz
file
|
Optional multiple sequence alignment (MSA) in Stockholm format *.{sto.gz}
|
target_summary
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.tbl.gz
file
|
Optional tabular (space-delimited) summary of per-target output *.{tbl.gz}
|
| Tool | Description | Homepage |
|---|---|---|
| infernal | Infernal is for searching DNA sequence databases for RNA structure and sequence similarities. | http://eddylab.org/infernal/Userguide.pdf |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:25:03 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Finfernal%2Fcmsearch/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/infernal/cmsearch/blobs/sha256:aadeed541449a4a28e3e8ad3eaa8c962d60c6e9477e31cf05ed26576b3cd3271 |
| Size | 3.4 KB |
| Checksum | sha256:aadeed541449a4a28e3e8ad3eaa8c962d60c6e9477e31cf05ed26576b3cd3271 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:25:03 (UTC) | 4 | 3.4 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:16:56 (UTC) | 4 | 3.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:10:47 (UTC) | 3 | 3.4 KB |