nf-core/freyja/update @ 0.0.0-0c7146d
Summary
downloads new versions of the curated SARS-CoV-2 lineage file and barcodes
Get started
Add the following snippet to your workflow script to include this module.
include { FREYJA_UPDATE } from 'nf-core/freyja/update'
License
MIT License
Process
Name
|
FREYJA_UPDATE |
|---|
Input
1 channel
db_name
string
|
The name of the database directory |
|---|
Output
5 channels
#1
config
${db_name}/*pathogen_config.yml
file
|
File containing pathogen configuration information for Freyja *pathogen_config.yml
|
|---|
#2
barcodes
${db_name}/*barcodes.*
file
|
File containing lineage defining barcodes *barcodes.csv
|
|---|
#3
lineages_meta
${db_name}/*curated_lineages.json
file
|
File containing lineage metadata that correspond to barcodes *curated_lineages.json
|
|---|
#4
versions_freyja
tuple
${task.process}
string
|
The name of the process |
|---|---|
freyja
string
|
The name of the tool |
freyja --version | sed 's/.* //'
eval
|
The expression to obtain the version of the tool |
#5
lineages_topology
${db_name}/*lineages.yml
file
|
File containing lineage topology information that correspond to barcodes *lineages.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| freyja | Freyja recovers relative lineage abundances from mixed SARS-CoV-2 samples and provides functionality to analyze lineage dynamics. | https://github.com/andersen-lab/Freyja |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:40:12 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ffreyja%2Fupdate/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/freyja/update/blobs/sha256:aec24ded0b68e0ce0daa999dfd3bbb6c330666ee33ca543b61383ac897bf3106 |
| Size | 2.5 KB |
| Checksum | sha256:aec24ded0b68e0ce0daa999dfd3bbb6c330666ee33ca543b61383ac897bf3106 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:40:12 (UTC) | 1 | 2.5 KB | - |