mitoODE
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last 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>
citation("mitoODE")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| mitoODE | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CellBasedAssays, ExperimentData, ImmunoOncology, Preprocessing, Software, TimeCourse |
| Version | 1.22.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (10.5 years) |
| License | LGPL |
| Depends | R (>= 2.14.0), minpack.lm, MASS, parallel, mitoODEdata, KernSmooth |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
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| Build Report | 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 git@git.bioconductor.org:packages/mitoODE |
| Bioc Package Browser | https://code.bioconductor.org/browse/mitoODE/ |
| Package Short Url | https://bioconductor.org/packages/mitoODE/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |