ImpulseDE
This package is for version 3.8 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see ImpulseDE2.
Detection of DE genes in time series data using impulse models
Bioconductor version: 3.8
ImpulseDE is suited to capture single impulse-like patterns in high throughput time series datasets. By fitting a representative impulse model to each gene, it reports differentially expressed genes whether across time points in a single experiment or between two time courses from two experiments. To optimize the running time, the code makes use of clustering steps and multi-threading.
Author: Jil Sander [aut, cre], Nir Yosef [aut]
Maintainer: Jil Sander <jil.sander at uni-bonn.de>, Nir Yosef <niryosef at berkeley.edu>
citation("ImpulseDE")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ImpulseDE")
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("ImpulseDE")| ImpulseDE | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Software, StatisticalMethod, TimeCourse |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
| License | GPL-3 |
| Depends | graphics, grDevices, stats, utils, parallel, compiler, R (>= 3.2.3) |
| Imports | amap, boot |
| System Requirements | |
| URL | https://github.com/YosefLab/ImpulseDE |
| Bug Reports | https://github.com/YosefLab/ImpulseDE/issues |
See More
| Suggests | longitudinal, knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ImpulseDE_1.8.0.tar.gz |
| Windows Binary | ImpulseDE_1.8.0.zip |
| Mac OS X 10.11 (El Capitan) | ImpulseDE_1.8.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ImpulseDE |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ImpulseDE |
| Bioc Package Browser | https://code.bioconductor.org/browse/ImpulseDE/ |
| Package Short Url | https://bioconductor.org/packages/ImpulseDE/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.8 | Source Archive |