├── .editorconfig ├── .eslintrc.json ├── .gitattributes ├── .github └── CONTRIBUTING.md ├── .gitignore ├── CHANGELOG.md ├── Dockerfile ├── LICENSE ├── README.Rmd ├── README.md ├── bin ├── ranystr ├── rbashful ├── rbin ├── rclrs ├── rconfig ├── rctl ├── rdeps ├── rdownload ├── rinstall ├── rmv ├── rsession └── rtime_stamp ├── doc ├── changelogs │ ├── CHANGELOG_V0.1.2.md │ ├── CHANGELOG_V0.1.3.md │ ├── CHANGELOG_V0.1.4.md │ ├── CHANGELOG_V0.1.5.md │ ├── CHANGELOG_V0.1.6.md │ └── CHANGELOG_V0.1.7.md └── images │ └── rctl-logo.svg ├── examples └── rbashful │ └── rnaseq_splicing │ ├── 01_genome │ ├── cli.yaml │ ├── env.toml │ └── submit │ └── 02_leafcutter_majiq │ ├── cli.yaml │ ├── env.toml │ ├── rbashful │ ├── samples │ ├── scripts │ ├── 01_link_bams.R │ ├── majiq_builder_step.sh │ └── parse_samples_yaml.sh │ └── submit ├── package.json ├── rlib ├── DESCRIPTION ├── LICENSE ├── Makefile ├── NAMESPACE ├── R │ └── rctl.R ├── man │ └── ngsjs.Rd ├── rctl.Rproj ├── tests │ └── testthat │ │ └── 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