Description
Deduplicate reads based on the mapping co-ordinate and the UMI attached to the read.
Type
bash_script
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
paired: [ false ]
output_bam: "$id.$key.output_bam"
output_stats: "$id.$key.output_stats"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/rnaseq.git \
-revision v0.1.1 \
-main-script target/nextflow/umitools/umitools_dedup/main.nf \
-params-file params.yaml Name | Type & Properties |
|---|---|
--paired | boolean |
--bam | file |
--bai | file |
--get_output_stats | boolean |
Name | Type & Properties |
|---|---|
--output_bam | file output |
--output_stats | file output |