nf-core/stadeniolib/scramble @ 0.0.0-3fc6d40
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 | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:32:43 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fstadeniolib%2Fscramble/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/stadeniolib/scramble/blobs/sha256:9e464cc64eb06aec25e96f912a8b8d73b11e3b77e2ad71cc3e24b0411ea49ca4 |
| Size | 2.8 KB |
| Checksum | sha256:9e464cc64eb06aec25e96f912a8b8d73b11e3b77e2ad71cc3e24b0411ea49ca4 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:47:17 (UTC) | 3 | 2.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:32:43 (UTC) | 4 | 2.8 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:40:26 (UTC) | 3 | 2.7 KB |