eset/create_pdata
Description
Create a pdata file by combining the mapping statistics
Arguments
Name | Type & Properties | Description |
|---|---|---|
--star_stats_file | file required | Tab-delimited text file containing statistics (per column) that were generated from the STAR log files (Log.final.out, Summary.csv, ReadsPerGene.out.tab). Each entry (row) in the file describes the values for one well (barcode). |
--nrReadsNrGenesPerChromPool | file required | Pivot table in tsv format of the combined nrReadsNrGenesPerChrom files from STAR. Describes per chromosome (as columns) the number of reads, as well as the total number of reads per cell barcode and the percentage of nuclear, ERCC and mitochondrial reads. |
--output | file output |
Run this component
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 v0.15.0-rc.2 \
-main-script target/nextflow/eset/create_pdata/main.nf \
-params-file params.yaml Relationships
Used by
1 relationships
Current component
eset/create_pdatahtrnaseq v0.15.0-rc.2
Uses
0 relationships
No component dependencies found.