nf-core/autocycler/subsample @ 0.0.0-0c7146d
Summary
Downsample long-read sequencing data to the requested coverage using Autocycler.
Get started
Add the following snippet to your workflow script to include this module.
include { AUTOCYCLER_SUBSAMPLE } from 'nf-core/autocycler/subsample'
License
MIT License
Process
Name
|
AUTOCYCLER_SUBSAMPLE |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
reads
file
|
Long-read sequencing reads for the sample in FASTQ format (compressed or uncompressed). *.{fastq,fastq.gz,fq,fq.gz}
|
genome_size
integer
|
Expected genome size in bases used to calculate the target sequencing depth. |
|---|
Output
2 channels
#1
subsampled_reads
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
$prefix/*.fastq.gz
file
|
Subsampled reads produced by Autocycler. */*.fastq.gz
|
#2
versions_autocycler
tuple
${task.process}
string
|
The name of the process |
|---|---|
autocycler
string
|
The name of the tool |
autocycler --version | sed 's/^[^ ]* //'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| autocycler | A tools for generating consensus long-read assemblies for bacterial genomes. | https://github.com/rrwick/Autocycler/wiki |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:23:24 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fautocycler%2Fsubsample/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/autocycler/subsample/blobs/sha256:cf93900c16e125edcf70d091dab6427a5f63aac87631bbf87bf88e3abded1295 |
| Size | 2.7 KB |
| Checksum | sha256:cf93900c16e125edcf70d091dab6427a5f63aac87631bbf87bf88e3abded1295 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:23:24 (UTC) | 1 | 2.7 KB | - |