The Collaborative and Intergrative Genomics (CIG) is a group in the McDonnell Genome Institute (MGI) at the Washington University School of Medicine (WUSM).
In this repo, we share pipelines, workflows, and tools in the form of WDL with corresponding Dockerfiles and scripts focused on reusable, reproducible analysis pipelines for genomics data.
| Path | Description |
|---|---|
| resources | directories of namespaces containing dockers and scripts |
| wdl | workflow definitions written in WDL (cromwell) |
| wdl/pipelines | full start to end workflows that produce outputs from multiple steps |
| wdl/tasks | wrapped command line interfaces and scripts (must be incorporated into tools/pipelines) |
| wdl/tools | stand alone workflows that combine tasks to produce singular outputs |
| wdl/structs | data structures and types for pipelines, tools, and tasks |
| scripts | scripts for this repository |
| import | assorted unassimilated pipelines, code, etc. |