- get-faidx-file-from-reference-file
- create-contig-obj-for-hla-chr6-region
- get-samplesheet-midfix-regex
- flatten-array-fastq-list
- parse-int-array
- parse-int
- parse-file
- get-compressed-vcf-file-from-directory
- get-custom-output-dir-entry-for-tso500-post-processing
- get-bam-file-from-directory
- create-predefined-mount-paths-and-umccrise-row-from-umccrise-schema
- get-custom-output-dir-entry-for-tso500-with-post-processing
- create-single-directory-from-directories-array
- samtools-merge
- tabix
- sambamba-merge-and-index
- sambamba-sort-and-index
- sambamba-slice-and-index
- sambamba-view-and-index
- optitype
- custom-subset-bam
- custom-hla-bed-from-faidx
- bedops
- dragen-germline
- custom-create-tso500-samplesheet
- tso500-ctdna-demultiplex-workflow
- tso500-ctdna-analysis-workflow
- tso500-ctdna-reporting-workflow
- custom-samplesheet-split-by-settings
- bclConvert
- create-dummy-file
- multiqc-interop
- dragen-somatic
- dragen-transcriptome
- arriba-fusion-calling
- arriba-drawing
- multiqc
- dragen-alignment
- custom-create-directory
- dragen-build-reference-tarball
- bgzip
- mosdepth
- custom-tso500-make-region-coverage-qc
- custom-tso500-make-exon-coverage-qc
- custom-tso500-align-collapse-fusion-caller-csv-metrics-to-json
- custom-tsv-to-json
- custom-tar-vcf-file-list
- custom-gzip-file
- custom-tar-file-list
- custom-create-umccrise-tsv
- umccrise
- custom-create-umccr-dragen-refdata-tarball-from-illumina-tar
- dragen-umi
- bcftools-view
- rnasum
- samtools-stats
- custom-stats-qc
- calculate-coverage
- bamtofastq
- qualimap
- map_resource_requirements
- bcl-convert
- star
- illumina-interop
- custom-tso500-cnv-caller-bin-counts-to-json
- bam handlers
- bam handler
- bam handler
- bam handler
- hla
- bam handler
- tso500
- tso500
- tso500
- tso500
- qc
- visual
- optitype-pipeline
- get-hla-regions-bed
- dragen-germline-pipeline
- dragen-qc-hla-pipeline
- tso500-ctdna
- bcl-conversion
- dragen-somatic-pipeline
- dragen-transcriptome-pipeline
- dragen-alignment-pipeline
- dragen-wgs-qc-pipeline
- tso500-ctdna-post-processing-pipeline
- umccrise-pipeline
- tso500-ctdna-with-post-processing-pipeline
- umccrise-with-dragen-germline-pipeline
- ghif-qc
- dragen-pon-qc
- dragen-wts-qc-pipeline
- tabix-workflow
- bclconvert-with-qc-pipeline
- bclconvert
- bclconvert-scatter
- validate-bclconvert-samplesheet
- dragen-somatic-with-germline-pipeline
- illumina-interop-qc
- rnasum-pipeline
- bclconvert-interop-qc
- hla
- dragen
- tso500
- dragen
- variant-calling
- alignment
- dragen
- dragen
- tso500
- tso500