To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("mitoODE")

In most cases, you don't need to download the package archive at all.

mitoODE

Implementation of the differential equation model described in "Dynamical modelling of phenotypes in a genome-wide RNAi live-cell imaging assay"

Bioconductor version: Release (3.0)

The package contains the methods to fit a cell-cycle model on cell count data and the code to reproduce the results shown in our paper "Dynamical modelling of phenotypes in a genome-wide RNAi live-cell imaging assay" by Pau, G., Walter, T., Neumann, B., Heriche, J.-K., Ellenberg, J., & Huber, W., BMC Bioinformatics (2013), 14(1), 308. doi:10.1186/1471-2105-14-308

Author: Gregoire Pau

Maintainer: Gregoire Pau <pau.gregoire at gene.com>

Citation (from within R, enter citation("mitoODE")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("mitoODE")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("mitoODE")

 

PDF R Script mitoODE
PDF   Reference Manual
Text   NEWS

Details

biocViews CellBasedAssays, ExperimentData, Preprocessing, Software, TimeCourse
Version 1.4.0
In Bioconductor since BioC 2.13 (R-3.0)
License LGPL
Depends R (>= 2.14.0), minpack.lm, MASS, parallel, mitoODEdata, KernSmooth
Imports
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source mitoODE_1.4.0.tar.gz
Windows Binary mitoODE_1.4.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) mitoODE_1.4.0.tgz
Mac OS X 10.9 (Mavericks) mitoODE_1.4.0.tgz
Browse/checkout source (username/password: readonly)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center