nf-core/tcoffee/irmsd @ 0.0.0-0c7146d
Summary
Computes the irmsd score for a given alignment and the structures.
Get started
Add the following snippet to your workflow script to include this module.
include { TCOFFEE_IRMSD } from 'nf-core/tcoffee/irmsd'
License
MIT License
Process
Name
|
TCOFFEE_IRMSD |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', ... ] |
|---|---|
msa
file
|
Multiple Sequence Alignment File |
#2
tuple
meta2
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
template
file
|
Template file |
structures
file
|
Structure file |
Output
3 channels
#1
irmsd
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}.irmsd
file
|
File containing the irmsd of the alignment |
#2
versions_pigz
tuple
${task.process}
string
|
The name of the process |
|---|---|
pigz
string
|
The name of the tool |
pigz --version 2>&1 | sed "s/^.*pigz[[:space:]]*//"
eval
|
The expression to obtain the version of the tool |
#3
versions_tcoffee
tuple
${task.process}
string
|
The name of the process |
|---|---|
tcoffee
string
|
The name of the tool |
t_coffee -version | awk '{gsub("Version_", ""); print \$3}'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| tcoffee | A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence | http://www.tcoffee.org/Projects/tcoffee/ |
| pigz | Parallel implementation of the gzip algorithm. | https://zlib.net/pigz/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:19:05 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ftcoffee%2Firmsd/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/tcoffee/irmsd/blobs/sha256:2d802258fcca9147caca6efbf98ccb1cf89981497b1fbc476835153d28b12178 |
| Size | 2.9 KB |
| Checksum | sha256:2d802258fcca9147caca6efbf98ccb1cf89981497b1fbc476835153d28b12178 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:19:05 (UTC) | 1 | 2.9 KB | - |