nf-core/bedtools/getfasta @ 0.0.0-0c7146d
Summary
extract sequences in a FASTA file based on intervals defined in a feature file.
Get started
Add the following snippet to your workflow script to include this module.
include { BEDTOOLS_GETFASTA } from 'nf-core/bedtools/getfasta'
License
MIT License
Process
Name
|
BEDTOOLS_GETFASTA |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bed
file
|
Bed feature file *.{bed}
|
fasta
file
|
Input fasta file *.{fa,fasta}
|
|---|
Output
2 channels
#1
fasta
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.fa
file
|
Output fasta file with extracted sequences *.{fa}
|
#2
versions_bedtools
tuple
${task.process}
string
|
The name of the process |
|---|---|
bedtools
string
|
The name of the tool |
bedtools --version | sed -e 's/bedtools v//g'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| bedtools | A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types. | n/a |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:26:12 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbedtools%2Fgetfasta/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bedtools/getfasta/blobs/sha256:b761976495b860fb30d230dc5e0a5780f1e7a5c888cc48de03998cf649cb9f56 |
| Size | 2.3 KB |
| Checksum | sha256:b761976495b860fb30d230dc5e0a5780f1e7a5c888cc48de03998cf649cb9f56 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:26:12 (UTC) | 1 | 2.3 KB | - |