> We have been using snakemake (python-based, but essentially a domain > language) with some pretty nice results. Nextflow (groovy-based) and Toil > are another couple that I am watching closely. The Broad just released WDL > and associated executors. And common-workflow-language (CWL) is gaining > traction as a way to write reproducible, sharable workflows. None of these > is directly R-based, but each will run any command-line software in a > reproducible, scalable way. The python-based workflow tools (Toil and > snakemake) can directly execute R code using rpy2 integration if that is > something you desire.
Thanks, I knew snakemake and nextflow but not the others and the useful github collection. Our internal system is http://bioinfotree.org/wiki/Main_Page (but the website maintainer is not working here anymore therefore I do not know how much of that is mantained :)) - I will look into integrating it with docker and bioc annotation packages to see if something interesting/useful comes out. E. -- $ pom _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
