nf-core/freyja/demix @ 0.0.0-6c4ed3a
Summary
specify the relative abundance of each known haplotype
Get started
Add the following snippet to your workflow script to include this module.
include { FREYJA_DEMIX } from 'nf-core/freyja/demix'
License
MIT License
Process
Name
|
FREYJA_DEMIX |
|---|
Input
4 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
variants
file
|
File containing identified variants in a gff-like format *.variants.tsv
|
depths
file
|
File containing depth of the variants *.depth.tsv
|
barcodes
file
|
File containing lineage defining barcodes *barcodes.csv
|
|---|
lineages_meta
file
|
Optional file containing lineage metadata that correspond to barcodes *lineages.json
|
|---|
lineages_topology
file
|
Optional file containing lineage topology information that correspond to barcodes *lineages.yml
|
|---|
Output
2 channels
#1
demix
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.tsv
file
|
a tsv file that includes the lineages present, their corresponding abundances, and summarization by constellation *.demix.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 | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:17:49 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Ffreyja%2Fdemix/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/freyja/demix/blobs/sha256:cdbd503df2584c09fe08d36385f35db34c77dd35655ebb8248982bffcc3730a1 |
| Size | 2.8 KB |
| Checksum | sha256:cdbd503df2584c09fe08d36385f35db34c77dd35655ebb8248982bffcc3730a1 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:17:49 (UTC) | 3 | 2.8 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:12:32 (UTC) | 3 | 2.8 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:01:49 (UTC) | 3 | 2.8 KB |