CENTIPEDE: CENTIPEDE learns a DNaseI footprint of a transcription factor and predicts its binding sites

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Centipede fits a bayesian hierarchical mixture model to learn TF-specific distribution of experimental data on a particular cell-type for a set of candidate binding sites described by a motif. More documentation is under preparation and will be make available soon at http://centipede.uchicago.edu

Author
Jacob F Degner, Roger Pique-Regi
Date of publication
None
Maintainer
Roger Pique-Regi <rpique@uchicago.edu>
License
GPL
Version
1.2

View on R-Forge

Man pages

CENTIPEDE-package
CENTIPEDE a probabilistic model for learning DNaseI...
fitCentipede
CENTIPEDE core function
imageCutSites
Plots and image with the cleavage pattern
plotProfile
Plots a footprint estimated by Centipede

Files in this package

CENTIPEDE
CENTIPEDE/NAMESPACE
CENTIPEDE/data
CENTIPEDE/data/NRSF_Anno.rda
CENTIPEDE/data/NRSFcuts.rda
CENTIPEDE/R
CENTIPEDE/R/plotProfiles.R
CENTIPEDE/R/fitCentipede.R
CENTIPEDE/R/imageCutSites.R
CENTIPEDE/DESCRIPTION
CENTIPEDE/man
CENTIPEDE/man/CENTIPEDE-package.Rd
CENTIPEDE/man/plotProfile.Rd
CENTIPEDE/man/fitCentipede.Rd
CENTIPEDE/man/imageCutSites.Rd