Biokepi: Bioinformatics Ketrew Pipelines
This project provides a family of libraries to construct “Ketrew Workflows” for bioinformatics pipelines.
This should be considered “alpha / preview” software.
See the documentation at
The main dependency is Ketrew (which requires OCaml ≥ 4.02.2).
To install the pre-release through
opam pin add biokepi "https://github.com/hammerlab/biokepi.git#biokepi.0.0.0" [opam install biokepi]
To use the
master branch you need also to track the
master branch of Ketrew:
opam pin add ketrew https://github.com/hammerlab/ketrew.git opam pin add biokepi https://github.com/hammerlab/biokepi.git
To build locally:
make make clean ; WITH_TESTS=true make # To build also all the tests make doc # To build the documentation, then cf. _build/doc/index.html
Biokepi module is the main entry point for most use cases.
There are “demo” command-line applications in the
src/app/ directory and
The main demo application (
src/app/main.ml) is documented here: Use the