PyPanda: a Python']Python package for gene regulatory network reconstruction

被引：8

作者：

van IJzendoorn, David G. P. ^{[1
]}

Glass, Kimberly ^{[2
]}

Quackenbush, John ^{[3
,4
,5
]}

Kuijjer, Marieke L. ^{[3
,4
]}

机构：

[1] Leiden Univ, Dept Pathol, Med Ctr, NL-2300 RC Leiden, Netherlands

[2] Harvard Med Sch, Brigham & Womens Hosp, Channing Div Network Med, Dept Med, Boston, MA 02215 USA

[3] Dana Farber Canc Inst, Dept Biostat & Computat Biol, Boston, MA 02215 USA

[4] Harvard TH Chan Sch Publ Hlth, Dept Biostat, Boston, MA 02215 USA

[5] Dana Farber Canc Inst, Dept Canc Biol, Boston, MA 02215 USA

来源：

BIOINFORMATICS | 2016年 / 32卷 / 21期

基金：

美国国家卫生研究院;

关键词：

D O I：

10.1093/bioinformatics/btw422

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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 and implementation: The open source PyPanda Python package is freely available at http://github.com/davidvi/pypanda. Contact: mkuijjer@jimmy.harvard.edu or d.g.p.van_ijzendoorn@lumc.nl

引用

页码：3363 / 3365

页数：3

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