Python workflow/pipeline repository?

Question

[racuna]

Is there a repository of Python workflows/pipelines? For example, Taverna workflows can be found at the myExperiment website. Is there anything similar for pure Python based workflows/pipelines? Even systems that use Python only for a glue language would be useful. (My actual interest is in seeing how Python scripts are used to control external tools.)

Answer 1

[Sean Davis]

You might take a look at snakemake and the snakemake workflow repository:

https://bitbucket.org/johanneskoester/snakemake-workflows/src

Answer 2

[Ido Tamir]

https://bcbio-nextgen.readthedocs.org/en/latest/

There are also python based workflow engines: snakemake, ruffus and others.

Answer 3

[Ming Tommy Tang]

Blacktie for RNA-seq