nf-core/openmsthirdparty/cometadapter @ 0.0.0-3fc6d40
Summary
Annotates MS/MS spectra using Comet.
Get started
Add the following snippet to your workflow script to include this module.
include { OPENMSTHIRDPARTY_COMETADAPTER } from 'nf-core/openmsthirdparty/cometadapter'
License
MIT License
Process
Name
|
OPENMSTHIRDPARTY_COMETADAPTER |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
mzml
file
|
File containing mass spectra in mzML format *.{mzML}
|
fasta
file
|
Protein sequence database containing targets and decoys *.{fasta}
|
Output
4 channels
#1
pin
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.tsv
file
|
TSV file tailored as Percolator input (pin) file *.{tsv}
|
#2
idxml
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.idXML
file
|
File containing target and decoy hits in idXML format *.{idXML}
|
#3
versions_comet
tuple
${task.process}
string
|
The name of the process |
|---|---|
Comet
string
|
The name of the tool |
comet 2>&1 | sed -n 's/.*Comet version " *\(.*\)".*/\1/p'
eval
|
The expression to obtain the version of the tool |
#4
versions_cometadapter
tuple
${task.process}
string
|
The name of the process |
|---|---|
CometAdapter
string
|
The name of the tool |
CometAdapter --help 2>&1 | sed -nE 's/^Version: ([0-9.]+).*/\1/p'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| openms | OpenMS is an open-source software C++ library for LC-MS data management and analyses | https://openms.de |
| CometAdapter | Annotates MS/MS spectra using Comet. | https://openms.de |
| Comet | Comet is an open source tandem mass spectrometry (MS/MS) sequence database search tool. | http://comet-ms.sourceforge.net/ |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:24:15 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fopenmsthirdparty%2Fcometadapter/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/openmsthirdparty/cometadapter/blobs/sha256:9a2d21c500f33c75e38ea4fa33268c36568116bd2401fbb195a027cc9ee5986b |
| Size | 3.7 KB |
| Checksum | sha256:9a2d21c500f33c75e38ea4fa33268c36568116bd2401fbb195a027cc9ee5986b |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:33:52 (UTC) | 3 | 3.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:24:15 (UTC) | 3 | 3.7 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:22:26 (UTC) | 3 | 3.7 KB |