DIME: DIME (Differential Identification using Mixture Ensemble)
Version 1.2

A robust differential identification method that considers an ensemble of finite mixture models combined with a local false discovery rate (fdr) to analyze ChIP-seq (high-throughput genomic)data comparing two samples allowing for flexible modeling of data.

Browse man pages Browse package API and functions Browse package files

AuthorCenny Taslim <taslim.2@osu.edu>, with contributions from Dustin Potter, Abbasali Khalili and Shili Lin <shili@stat.osu.edu>.
Date of publication2013-12-09 23:08:40
MaintainerCenny Taslim <taslim.2@osu.edu>
LicenseGPL (>= 2)
Version1.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("DIME")

Man pages

DIME: DIME (Differential Identification using Mixtures Ensemble)
DIME.classify: Classification Based on The Best Model
DIME-package: DIME (Differential Identification using Mixtures Ensemble)
DIME.plot.fit: Plot Best Model Goodness of Fit
gng.classify: Classification Based on GNG Model
gng.fit: Function for Fitting GNG model parameters
gng.plot.comp: Plot GNG Individual Components
gng.plot.fit: Plot GNG Goodness of Fit
gng.plot.mix: Plot GNG Mixture Component Function
gng.plot.qq: QQ-plot of GNG model vs. observed data
gng.qq.plot.internal: Internal function for QQ-plot of GNG model.
huber: Huber's weight function
inudge.classify: Classification Based on iNUDGE Model
inudge.fit: Function for Fitting iNUDGE model parameters
inudge.plot.comp: Plot iNUDGE Individual Components
inudge.plot.fit: Plot iNUDGE Goodness of Fit
inudge.plot.mix: Plot iNUDGE Mixture Component Function
inudge.plot.qq: QQ-plot of GNG model vs. observed data
inudge.qq.plot.internal: Internal function for QQ-plot of iNUDGE model
nudge.classify: Classification Based on NUDGE Model
nudge.fit: Function for Fitting NUDGE model parameters
nudge.plot.comp: Plot NUDGE Individual Components
nudge.plot.fit: Plot NUDGE Goodness of Fit
nudge.plot.mix: Plot NUDGE Mixture Component Function
nudge.plot.qq: QQ-plot of GNG model vs. observed data

Functions

DIME Man page Man page Source code
DIME.classify Man page Source code
DIME.package Man page
DIME.plot Man page
DIME.plot.fit Man page Source code
DIME_package Man page
gng.classify Man page Source code
gng.fit Man page Source code
gng.plot.comp Man page Source code
gng.plot.fit Man page Source code
gng.plot.mix Man page Source code
gng.plot.qq Man page Source code
gng.qq.plot.internal Man page Source code
huber Man page
inudge.classify Man page Source code
inudge.fit Man page Source code
inudge.plot.comp Man page Source code
inudge.plot.fit Man page Source code
inudge.plot.mix Man page Source code
inudge.plot.qq Man page Source code
inudge.qq.plot.internal Man page Source code
nudge.classify Man page Source code
nudge.fit Man page Source code
nudge.plot.comp Man page Source code
nudge.plot.fit Man page Source code
nudge.plot.mix Man page Source code
nudge.plot.qq Man page Source code

Files

src
src/ENE.c
NAMESPACE
R
R/nudge.classify.R
R/inudge.classify.R
R/nudge.fit.R
R/gng.classify.R
R/inudge.plot.qq.R
R/inudge.fit.R
R/huber.R
R/DIME.classify.R
R/nudge.plot.mix.R
R/nudge.plot.fit.R
R/inudge.plot.fit.R
R/DIME.plot.fit.R
R/inudge.plot.mix.R
R/nudge.plot.comp.R
R/DIME.R
R/nudge.plot.qq.R
R/gng.plot.mix.R
R/inudge.qq.plot.internal.R
R/gng.qq.plot.internal.R
R/gng.fit.R
R/gng.plot.comp.R
R/gng.plot.qq.R
R/inudge.plot.comp.R
R/gng.plot.fit.R
MD5
DESCRIPTION
man
man/inudge.plot.comp.Rd
man/gng.classify.Rd
man/inudge.classify.Rd
man/gng.plot.mix.Rd
man/DIME.plot.fit.Rd
man/inudge.plot.mix.Rd
man/inudge.plot.qq.Rd
man/DIME.classify.Rd
man/gng.plot.fit.Rd
man/nudge.classify.Rd
man/inudge.fit.Rd
man/gng.qq.plot.internal.rd
man/nudge.plot.comp.Rd
man/huber.Rd
man/DIME.Rd
man/nudge.plot.qq.Rd
man/DIME-package.Rd
man/gng.plot.qq.Rd
man/nudge.plot.fit.Rd
man/nudge.fit.Rd
man/gng.plot.comp.Rd
man/gng.fit.Rd
man/nudge.plot.mix.Rd
man/inudge.plot.fit.Rd
man/inudge.qq.plot.internal.rd
DIME documentation built on May 19, 2017, 4:22 p.m.