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isugifNF / GATK-flow

Nextflow implementation of the GATK HaplotypeCaller pipeline
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Remove invariant section from RNAseq (#11) #12

Closed j23414 closed 9 months ago

j23414 commented 9 months ago

Since Best Practices does not include invariant steps in RNAseq analysis, remove that section here.

https://github.com/gatk-workflows/gatk4-rnaseq-germline-snps-indels/blob/c5fc93ea0424c7eaa3dd6bb0e50ce8deb241c0d5/gatk4-rna-best-practices.wdl