This library provides wrappers for popular tools for genomics, transcriptomics and phylogeny, as well as custom tools to help piping data from one tool to the other.
Published: 15 Nov 2021
bistro: build and run distributed workflows
bistro is an OCaml library to build and run computations represented by a collection of interdependent scripts, as is often found in applied research (especially computational biology).
build complex and composable workflows declaratively
simple and lightweight wrapping of new components
resume-on-failure: if something fails, fix it and the workflow will restart from where it stopped
distributed workflow execution
development-friendly: when a script is modified, bistro automatically finds out what needs to be recomputed
automatic naming of generated files
static typing: detect file format errors at compile time!
The library provides a datatype to represent scripts (including metadata and dependencies), an engine to run workflows and a standard library providing components for popular tools (although mostly related to computational biology and unix for now).
Questions, suggestions or contributions are welcome, please file an issue as needed.
opam install bistro
to install the library, or:
opam pin add -y bistro --dev-repo
to get the current development version.