reference/build_cellranger_reference
Description
Build a Cell Ranger-compatible reference folder from user-supplied genome FASTA and gene GTF files. Creates a new folder named after the genome.
Arguments
Name | Type & Properties | Description |
|---|---|---|
--genome_fasta | file required | Reference genome fasta. |
--transcriptome_gtf | file required | Reference transcriptome annotation. |
--reference_version | string | Optional reference version string to include with reference |
--output | file required output | Output folder |
Run this component
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
output: "$id.$key.output.cellranger_reference"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/openpipeline.git \
-revision v4.2.0 \
-main-script target/nextflow/reference/build_cellranger_reference/main.nf \
-params-file params.yaml Relationships
Used by
1 relationships
Current component
reference/build_cellranger_referenceopenpipeline v4.2.0
Uses
0 relationships
No component dependencies found.