PyPanda: a Python Package for Gene Regulatory Network Reconstruction
Quantitative Methods
2016-07-14 v2
Abstract
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
Cite
@article{arxiv.1604.06783,
title = {PyPanda: a Python Package for Gene Regulatory Network Reconstruction},
author = {David G. P. van IJzendoorn and Kimberly Glass and John Quackenbush and Marieke L. Kuijjer},
journal= {arXiv preprint arXiv:1604.06783},
year = {2016}
}
Comments
3 pages, 1 figure; version after Bioinformatics proofs