nf-core/cobiontid/kmercounter @ 0.0.0-0c7146d
Summary
A rust based tool based on Needletail's FASTA parser tallies k-mer counts for large sequencing rounds. Written with downstream processing with Tensorflow or numpy in mind.
Get started
Add the following snippet to your workflow script to include this module.
include { COBIONTID_KMERCOUNTER } from 'nf-core/cobiontid/kmercounter'
License
MIT License
Process
Name
|
COBIONTID_KMERCOUNTER |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
fasta
file
|
Input fasta assembly file |
kmer_size
integer
|
Size of kmer to scan the genome for. |
|---|
Output
2 channels
#1
npy
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.npy
file
|
A Numpy file containing the kmer counts. |
#2
versions_kmercounter
tuple
${task.process}
string
|
The name of the process |
|---|---|
kmer-counter
string
|
The name of the tool |
kmer-counter --version | sed -e "s/K-mer counter //g"
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| kmer-counter | A rust based tool based on Needletail's FASTA parser tallies k-mer counts for large sequencing rounds. Written with downstream processing with Tensorflow or numpy in mind. | https://github.com/CobiontID/kmer-counter |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:32:07 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcobiontid%2Fkmercounter/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/cobiontid/kmercounter/blobs/sha256:0bef766f55812fe111003de1632891f28b4c62d102e0146f0d531c7564ab155c |
| Size | 2.4 KB |
| Checksum | sha256:0bef766f55812fe111003de1632891f28b4c62d102e0146f0d531c7564ab155c |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:32:07 (UTC) | 1 | 2.4 KB | - |