Darwin Rnavar

Variant calling from RNA-seq data using GATK4 best practices including alignment, BQSR, and HaplotypeCaller. Steps: Step 1: fastqc; Step 2: trim_galore; Step 3: star_align; Step 4: gatk_splitncigar; Step 5: gatk_bqsr; Step 6: gatk_haplotypecaller; Step 7: gatk_variantfiltration; Step 8: multiqc. Verticals: transcriptomics, clinical_genomics, oncogenomics.

Use in DarwinOmics

How to use it

Use this workflow element when the submitted analysis needs a multi-step execution path, imported workflow, Darwinomics wrapper, or workflow-scale comparison rather than a single module.