SBpipe allows mathematical modellers to automatically repeat the tasks of model simulation and parameter estimation, and extract robustness information from these repeat sequences in a solid and consistent manner, facilitating model development and analysis. SBpipe can run models implemented in COPASI, Python or coded in any other programming language using Python as a wrapper module. Pipelines can run on multicore computers, Sun Grid Engine (SGE), Load Sharing Facility (LSF) clusters, or via Snakemake.

Project info

Copyright © 2015-2018, Piero Dalle Pezze

Affiliation: The Babraham Institute, Cambridge, CB22 3AT, UK

License: MIT License (

Home Page:

Anaconda Cloud:


sbpiper (R dependency for data analysis):

sbpipe_snake (Snakemake workflows for SBpipe):

Mailing list:


GitHub (dev):

Travis-CI (dev):

Issues / Feature requests (dev):

Citation: Dalle Pezze P, Le Novère N. SBpipe: a collection of pipelines for automating repetitive simulation and analysis tasks. BMC Systems Biology. 2017 Apr;11:46.