nf-core/varlociraptor/preprocess @ 0.0.0-0c7146d
Summary
Obtains per-sample observations for the actual calling process with varlociraptor calls
Get started
Add the following snippet to your workflow script to include this module.
include { VARLOCIRAPTOR_PREPROCESS } from 'nf-core/varlociraptor/preprocess'
License
MIT License
Process
Name
|
VARLOCIRAPTOR_PREPROCESS |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
Sorted BAM/CRAM/SAM file *.{bam,cram,sam}
|
bai
file
|
Index of the BAM/CRAM/SAM file *.{bai,crai,sai}
|
candidates
file
|
Sorted BCF/VCF file *.{bcf,vcf,vcf.gz}
|
alignment_json
file
|
File containing alignment properties obtained with varlociraptor/estimatealignmentproperties *.json
|
fasta
file
|
Reference fasta file *.{fasta}
|
fai
file
|
Index for reference fasta file (must be with samtools index) *.{fai}
|
Output
2 channels
#1
bcf
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bcf
file
|
BCF file containing sample observations *.bcf
|
#2
versions_varlociraptor
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
varlociraptor
string
|
The tool name |
varlociraptor --version | sed 's/^varlociraptor //'
string
|
The command used to generate the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| varlociraptor | Flexible, uncertainty-aware variant calling with parameter free filtration via FDR control. | https://varlociraptor.github.io/docs/estimating/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:45:29 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fvarlociraptor%2Fpreprocess/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/varlociraptor/preprocess/blobs/sha256:ad855259e6e0c7e13c6d6f057829df4456ac1548da67a8537c914272733b9620 |
| Size | 3.0 KB |
| Checksum | sha256:ad855259e6e0c7e13c6d6f057829df4456ac1548da67a8537c914272733b9620 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:51:49 (UTC) | 3 | 3.0 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:45:29 (UTC) | 3 | 3.0 KB |