mitoODE

DOI: 10.18129/B9.bioc.mitoODE    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see mitoODE.

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

Bioconductor version: 3.9

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>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("mitoODE")

For older versions of R, please refer to the appropriate Bioconductor release.

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, ImmunoOncology, Preprocessing, Software, TimeCourse
Version	1.22.0
In Bioconductor since	BioC 2.13 (R-3.0) (6 years)
License	LGPL
Depends	R (>= 2.14.0), minpack.lm, MASS, parallel, mitoODEdata, KernSmooth
Imports
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Build Report

Package Archives

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

Source Package	mitoODE_1.22.0.tar.gz
Windows Binary	mitoODE_1.22.0.zip
Mac OS X 10.11 (El Capitan)	mitoODE_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/mitoODE
Source Repository (Developer Access)	git clone [email protected]:packages/mitoODE
Package Short Url	https://bioconductor.org/packages/mitoODE/
Package Downloads Report	Download Stats