nf-core/deepvariant/callvariants @ 0.0.0-0c7146d
Summary
Call variants from the examples produced by make_examples
Get started
Add the following snippet to your workflow script to include this module.
include { DEEPVARIANT_CALLVARIANTS } from 'nf-core/deepvariant/callvariants'
License
MIT License
Process
Name
|
DEEPVARIANT_CALLVARIANTS |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
make_examples_tfrecords
file
|
The actual sharded input files, from DEEPVARIANT_MAKEEXAMPLES process *.gz
|
Output
2 channels
#1
versions_deepvariant
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
deepvariant
string
|
The tool name |
/opt/deepvariant/bin/run_deepvariant --version | sed 's/^.*version //'
eval
|
The expression to obtain the version of the tool |
#2
call_variants_tfrecords
tuple
meta
list
|
Each output contains: unique ID string from input channel, meta, tfrecord file with variant calls. |
|---|---|
${prefix}.call-*-of-*.tfrecord.gz
list
|
Each output contains: unique ID string from input channel, meta, tfrecord file with variant calls. |
| Tool | Description | Homepage |
|---|---|---|
| deepvariant | DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data | https://github.com/google/deepvariant |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 0c7146d85582628b5d1034504702fa808632b1af |
| Release Date | 08 Apr 2026 18:35:43 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fdeepvariant%2Fcallvariants/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/deepvariant/callvariants/blobs/sha256:850ce699804655e181e96c53d7b4799eb8b958c8d0cace32f1fb2beefea5d1dd |
| Size | 3.0 KB |
| Checksum | sha256:850ce699804655e181e96c53d7b4799eb8b958c8d0cace32f1fb2beefea5d1dd |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:35:43 (UTC) | 1 | 3.0 KB | - |