package bistro-bio

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  2. Docs
Bistro workflows for computational biology


Dune Dependency





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.


A manual is available, but feel free to file issues if something is unclear or missing. There is also a generated API documentation.


Detailed instructions are available in the manual. In a nutshell, bistro can be installed using opam. You need a recent (at least 4.03.0) installation of OCaml. Once this is done, simply type

opam install bistro

to install the library, or:

opam pin add -y bistro --dev-repo

to get the current development version.