Description
Map RNA sequencing data, provided as fastq files (paired-end) to a reference genome using STAR Solo.
Input data must have been demultiplexed beforehand, meaning that a single fastq pair provides data for
one barcode (one well). Multiple wells can be mapped in parallel by providing multiple events to the
workflow. Output is provided as mapped output per pool, i.e. one output is provided per pool.
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
output: "$id.$key.output"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/htrnaseq.git \
-revision v0.2.0 \
-main-script target/nextflow/workflows/parallel_map_wf/main.nf \
-params-file params.yaml Name | Type & Properties |
|---|---|
--input_r1 | file required |
--input_r2 | file required |
--barcode | string required |
--pool | string required |
--genomeDir | file required |
--output | file required output |