nf-core/stadeniolib/scramble @ 0.0.0-0c7146d
Summary
Advanced sequence file format conversions
Get started
Add the following snippet to your workflow script to include this module.
include { STADENIOLIB_SCRAMBLE } from 'nf-core/stadeniolib/scramble'
License
MIT License
Process
Name
|
STADENIOLIB_SCRAMBLE |
|---|
Input
4 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
reads
file
|
BAM/CRAM/SAM file *.{bam,cram,sam}
|
fasta
file
|
Reference genome in FASTA format *.{fa,fasta}
|
|---|
fai
file
|
FASTA index file from samtools faidx *.{fai}
|
|---|
gzi
file
|
Optional gzip index file for BAM inputs *.gzi
|
|---|
Output
3 channels
#1
gzi
*.gzi
file
|
gzip index file for BAM outputs .{bam.gzi}
|
|---|
#2
cram
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.{cram,bam}
file
|
Compressed BAM/CRAM file *.{cram,bam}
|
#3
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| scramble | Staden Package 'io_lib' (sometimes referred to as libstaden-read by distributions). This contains code for reading and writing a variety of Bioinformatics / DNA Sequence formats. | https://github.com/jkbonfield/io_lib |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:16:24 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fstadeniolib%2Fscramble/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/stadeniolib/scramble/blobs/sha256:319b03e4ce0af60e58e8e642b92a1b518748360970b7ca0ed9b7fb770679f2ee |
| Size | 2.7 KB |
| Checksum | sha256:319b03e4ce0af60e58e8e642b92a1b518748360970b7ca0ed9b7fb770679f2ee |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:16:24 (UTC) | 1 | 2.7 KB | - |