EBSeqHMM

DOI: 10.18129/B9.bioc.EBSeqHMM  

This is the development version of EBSeqHMM; for the stable release version, see EBSeqHMM.

Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments

Bioconductor version: Development (3.19)

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>

Installation

To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("EBSeqHMM")

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

Documentation

PDF		Reference Manual

Details

biocViews	Bayesian, DifferentialExpression, GeneExpression, HiddenMarkovModel, ImmunoOncology, MultipleComparison, RNASeq, Sequencing, Software, StatisticalMethod, TimeCourse
Version	1.37.0
In Bioconductor since	BioC 3.0 (R-3.1) (9 years)
License	Artistic-2.0
Depends	EBSeq
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Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/EBSeqHMM
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/EBSeqHMM
Package Short Url	https://bioconductor.org/packages/EBSeqHMM/
Package Downloads Report	Download Stats