PyPanda: a Python Package for Gene Regulatory Network Reconstruction

PANDA (Passing Attributes between Networks for Data Assimilation) is a gene regulatory network inference method that uses message-passing to integrate multiple sources of 'omics data. PANDA was originally coded in C++. In this application note we describe PyPanda, the Python version of PANDA. PyPanda runs considerably faster than the C++ version and includes additional features for network analysis. Availability: The open source PyPanda Python package is freely available at https://github.com/davidvi/pypanda. Contact: d.g.p.van ijzendoorn@lumc.nl