cellranger/cellranger_mkref
cellranger
single-cell
rna-seq
alignment
reference
gtf
fasta
Description
Build a Cell Ranger-compatible reference folder from user-supplied genome FASTA and gene GTF files.
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/biobox.git \
-revision v0.4.0 \
-main-script target/nextflow/cellranger/cellranger_mkref/main.nf \
-params-file params.yaml Relationships
Used by
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No components use this component.
Current component
cellranger/cellranger_mkrefbiobox v0.4.0
Uses
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