nf-core/khmer/normalizebymedian @ 0.0.0-3fc6d40
Summary
Module that calls normalize-by-median.py from khmer. The module can take a mix of paired end (interleaved) and single end reads. If both types are provided, only a single file with single ends is possible.
Get started
Add the following snippet to your workflow script to include this module.
include { KHMER_NORMALIZEBYMEDIAN } from 'nf-core/khmer/normalizebymedian'
License
MIT License
Process
Name
|
KHMER_NORMALIZEBYMEDIAN |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
fastq_paired
file
|
Paired-end interleaved fastq files *.{fq,fastq}.gz
|
fastq_unpaired
file
|
Single-end fastq files *.{fq,fastq}.gz
|
Output
2 channels
#1
reads
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.fastq.gz
file
|
Interleaved fastq files *.{fq,fastq}.gz
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| khmer | khmer k-mer counting library | https://github.com/dib-lab/khmer |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:18:45 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fkhmer%2Fnormalizebymedian/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/khmer/normalizebymedian/blobs/sha256:20b128ecc527158dc1ec29adece327c38df24f66d520177f65e9ff306b676f0c |
| Size | 3.1 KB |
| Checksum | sha256:20b128ecc527158dc1ec29adece327c38df24f66d520177f65e9ff306b676f0c |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:26:48 (UTC) | 4 | 3.0 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:18:45 (UTC) | 3 | 3.1 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:12:45 (UTC) | 3 | 3.0 KB |