nf-core/mitohifi/findmitoreference @ 0.0.0-0c7146d
Summary
Download a mitochondrial genome to be used as reference for MitoHiFi.
NOTE: An optional NCBI API key can be supplied to MITOHIFI_FINDMITOREFERENCE. This should be set using Nextflow's secrets functionality:
nextflow secrets set NCBI_API_KEY <key>
See https://www.nextflow.io/docs/latest/secrets.html for more information.
Get started
Add the following snippet to your workflow script to include this module.
include { MITOHIFI_FINDMITOREFERENCE } from 'nf-core/mitohifi/findmitoreference'
License
MIT License
Name
|
MITOHIFI_FINDMITOREFERENCE |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
species
string
|
Latin name of the species for which a mitochondrial genome should be fetched [A-Z]?[a-z]* [a-z]*
|
reference
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.fasta
file
|
Downloaded mitochondrial genome in Fasta format *.{fasta,fa}
|
*.gb
file
|
Downloaded mitochondrial genome in Genbank format *.gb
|
versions_mitohifi
tuple
${task.process}
string
|
Name of the process |
|---|---|
mitohifi
string
|
The name of the tool |
echo 3.2.3
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| findMitoReference.py | Fetch mitochondrial genome in Fasta and Genbank format from NCBI | https://github.com/marcelauliano/MitoHiFi |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 0c7146d85582628b5d1034504702fa808632b1af |
| Release Date | 08 Apr 2026 19:18:24 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fmitohifi%2Ffindmitoreference/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/mitohifi/findmitoreference/blobs/sha256:6e39cbffaba360c9ba1d0834e1b64aed47b163bb224feb363409f8c1f4e153ab |
| Size | 2.5 KB |
| Checksum | sha256:6e39cbffaba360c9ba1d0834e1b64aed47b163bb224feb363409f8c1f4e153ab |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:18:24 (UTC) | 4 | 2.5 KB |