Network analysis tool: PyPanda
| Newsgroups | gmane.comp.python.bio.devel |
|---|---|
| Message-ID | <BD9D3E080495E84689EE5E6455198F9253A4C0B7@MAIL-MB01.lumcnet.prod.intern> |
Hi all, I work on network reconstruction of gene expression data using the PANDA algorithm (http://dx.doi.org/10.1371/journal.pone.0064832). 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 first released in C++ but now we've created a python implementation of the PANDA algorithm that is both faster than the C++ version (because we now use matrix operations) and has more features. https://github.com/davidvi/pypanda We'll be adding a manuscript on pypanda to arxiv any day now. Would you be interested in adding pypanda to biopython? I would be willing to maintain the code. I'll also file an enhancement bug as stated in your contributing section. Regards, David