nf-core/tcoffee/irmsd @ 0.0.0-3fc6d40
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 | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:34:20 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Ftcoffee%2Firmsd/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/tcoffee/irmsd/blobs/sha256:40a21667032e2d0b483cd961de1c6a05a77e768ca8b60bbd787bb737e0f8f4cc |
| Size | 2.9 KB |
| Checksum | sha256:40a21667032e2d0b483cd961de1c6a05a77e768ca8b60bbd787bb737e0f8f4cc |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:49:32 (UTC) | 3 | 2.9 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:34:20 (UTC) | 3 | 2.9 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:43:17 (UTC) | 4 | 2.9 KB |