nf-core/freyja/variants @ 0.0.0-0c7146d
Summary
call variant and sequencing depth information of the variant
Get started
Add the following snippet to your workflow script to include this module.
include { FREYJA_VARIANTS } from 'nf-core/freyja/variants'
License
MIT License
Process
Name
|
FREYJA_VARIANTS |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
bam
file
|
Sorted BAM file *.bam
|
fasta
file
|
The reference sequence used for mapping and generating the BAM file *.fa
|
|---|
Output
2 channels
#1
variants
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.variants.tsv
file
|
File containing identified variants in a gff-like format *.variants.tsv
|
*.depth.tsv
file
|
File containing depth of the variants *.depth.tsv
|
#2
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 |
| 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 | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:01:52 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Ffreyja%2Fvariants/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/freyja/variants/blobs/sha256:7bc85cc379891fc9fba2a4299d3fef03c2e190cf935164794f251eb77973630c |
| Size | 2.4 KB |
| Checksum | sha256:7bc85cc379891fc9fba2a4299d3fef03c2e190cf935164794f251eb77973630c |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:17:52 (UTC) | 3 | 2.4 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:12:35 (UTC) | 3 | 2.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:01:52 (UTC) | 4 | 2.4 KB |