samtools/samtools_idxstats
stats
mapping
counts
chromosome
bam
sam
cram
Description
Reports alignment summary statistics for a BAM file.
Inputs
Name | Type & Properties | Description |
|---|---|---|
--bam | file | BAM input file. |
--bai | file | BAM index file. |
--fasta | file | Reference file the CRAM was created with (optional). |
Outputs
Name | Type & Properties | Description |
|---|---|---|
--output | file required output | File containing samtools stats output in tab-delimited format. |
Run this component
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
output: "$id.$key.output.idxstats"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/biobox.git \
-revision v0.4.2 \
-main-script target/nextflow/samtools/samtools_idxstats/main.nf \
-params-file params.yaml Relationships
Used by
0 relationships
No components use this component.
Current component
samtools/samtools_idxstatsbiobox v0.4.2
Uses
0 relationships
No component dependencies found.