Mixer 1.03 – ChIP-chip Analysis by Mixture Model approach

Mixer 1.03

:: DESCRIPTION

Mixer is a mixture model approach to analyze ChIP-chip or ChIP-seq data, also with some utility functions to process DNA sequence data. It includes statistical methods for both data normalization and peak detection. The peak detection and quantification relies on a mixer model approach that dissects the distribution of background signals and the Immunoprecipitated signals. In contrast to many existing methods, mixer is more flexible by imposing less restrictive assumptions and allowing a relatively large proportion of peak regions. Robust performance on data sets predicted to contain numerous peaks is very important for the studies of the transcription factors with abundant binding sites, and common chromatin features or epigenetic marks.

::DEVELOPER

Wei Sun

:: SCREENSHOTS

N/A

::REQUIREMENTS

:: DOWNLOAD

  Mixer

:: MORE INFORMATION

Citation

Wei Sun, Michael J Buck, Mukund Patel and Ian J Davis (2009),
Improved ChIP-chip analysis by mixture model approach.
BMC Bioinformatics 2009, 10:173

MixNet 1.1.2 / MixeR 1.9 – Analyzes Biological Networks using Mixture Models

MixNet 1.1.2 / MixeR 1.9

:: DESCRIPTION

MixNet (Erdös-Renyi Mixture for Networks) is the first publicly available computer software that analyzes biological networks using mixture models.This model is based on the hypothesis that real networks are made of classes which show specific connectivity patterns.

The MixeR allows the use of the basical options of MixNet software and the post-treatment of the results.

::DEVELOPER

SSB group.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/MacOsX
  • C Complier / R package

:: DOWNLOAD

 MixNet / MixeR

:: MORE INFORMATION

Citation

Picard, F., Miele, V., Daudin,J-J., Cottret,L., Robin, S.,
Deciphering the connectivity structure of biological networks using MixNet,
MC Bioinformatics. 2009 Jun 16;10 Suppl 6:S17. doi: 10.1186/1471-2105-10-S6-S17.