EBSeqHMM
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see EBSeqHMM.
Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments
Bioconductor version: 3.9
The EBSeqHMM package implements an auto-regressive hidden Markov model for statistical analysis in ordered RNA-seq experiments (e.g. time course or spatial course data). The EBSeqHMM package provides functions to identify genes and isoforms that have non-constant expression profile over the time points/positions, and cluster them into expression paths.
Author: Ning Leng, Christina Kendziorski
Maintainer: Ning Leng <lengning1 at gmail.com>
citation("EBSeqHMM")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EBSeqHMM")
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("EBSeqHMM")| HMM | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian, DifferentialExpression, GeneExpression, HiddenMarkovModel, ImmunoOncology, MultipleComparison, RNASeq, Sequencing, Software, StatisticalMethod, TimeCourse |
| Version | 1.18.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (9.5 years) |
| License | Artistic-2.0 |
| Depends | EBSeq |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
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| 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 | EBSeqHMM_1.18.0.tar.gz |
| Windows Binary | EBSeqHMM_1.18.0.zip |
| Mac OS X 10.11 (El Capitan) | EBSeqHMM_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/EBSeqHMM |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/EBSeqHMM |
| Bioc Package Browser | https://code.bioconductor.org/browse/EBSeqHMM/ |
| Package Short Url | https://bioconductor.org/packages/EBSeqHMM/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |