Description
Split 10x Cell Ranger output directory into separate output fields.
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
filtered_h5: "$id.$key.filtered_h5.h5"
metrics_summary: "$id.$key.metrics_summary.csv"
molecule_info: "$id.$key.molecule_info.h5"
bam: "$id.$key.bam.bam"
bai: "$id.$key.bai.bai"
raw_h5: "$id.$key.raw_h5.h5"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/openpipeline.git \
-revision 1.0.0 \
-main-script target/nextflow/mapping/cellranger_count_split/main.nf \
-params-file params.yaml Name | Type & Properties |
|---|---|
--input | file required |
--filtered_h5 | file output |
--metrics_summary | file output |
--molecule_info | file output |
--bam | file output |
--bai | file output |
--raw_h5 | file output |