runner
Description
Runner for demultiplexing of raw sequencing data
Input arguments
Name | Type & Properties | Description |
|---|---|---|
--input | file required | Base directory of the form `s3:/<bucket>/Sequencing/<Sequencer>/<RunID>/` |
Annotation flags
Name | Type & Properties | Description |
|---|---|---|
--add_date_time | boolean_true | Add date and time to the output directory name. This is useful when running the same pipeline multiple times on the same input directory. |
--add_workflow_id | boolean_true | Add a workflow identifier to the output directory name. |
Output arguments
Name | Type & Properties | Description |
|---|---|---|
--fastq_output | file output | |
--falco_output | file output | |
--multiqc_output | file output |
Run this component
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
fastq_output: "$id.$key.fastq_output"
falco_output: "$id.$key.falco_output"
multiqc_output: "$id.$key.multiqc_output"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/demultiplex.git \
-revision v0.3.0 \
-main-script target/nextflow/runner/main.nf \
-params-file params.yaml Relationships
Used by
0 relationships
No components use this component.
Current component
runnerdemultiplex v0.3.0
Uses
2 relationships