leafworker (v0.2.0)
Feature: Add in a step to run IsoformSwitchAnalyzeR with or without covariates to find differential isoform usage/switching.
- Adding new rule to generate leafviz Rdata file.
- Adding new docker image with IsoformSwitchAnalyzeR dependencies.
- Adding docker image with ISA dependencies.
- Adding bam2fq step for running salmon, step to build salmon index, salmon-quant step, step to create a raw and normalized counts matrix, and a step to run ISA
- Adding quantify transcripts option to conditionally run IsoformSwitchAnalyzeR
Big fixes:
- Unset any R-related ENV vars related to system-level and user-level R package installations
- Updating renaming of col names for ISA sample sheet
Full Changelog: v0.1.0...v0.2.0