This package is for version 3.9 of Bioconductor;
for the stable, up-to-date release version, see
NBAMSeq.
Negative Binomial Additive Model for RNA-Seq Data
Bioconductor version: 3.9
High-throughput sequencing experiments followed by differential expression analysis is a widely used approach to detect genomic biomarkers. A fundamental step in differential expression analysis is to model the association between gene counts and covariates of interest. NBAMSeq a flexible statistical model based on the generalized additive model and allows for information sharing across genes in variance estimation.
Author: Xu Ren [aut, cre], Pei Fen Kuan [aut]
Maintainer: Xu Ren <xuren2120 at gmail.com>
Citation (from within R,
enter citation("NBAMSeq")
):
Installation
To install this package, start R (version
“3.6”) and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("NBAMSeq")
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("NBAMSeq")
Negative Binomial Additive Model for RNA-Seq Data | ||
Reference Manual | ||
Text | NEWS |
Details
biocViews | Coverage, DifferentialExpression, GeneExpression, RNASeq, Sequencing, Software |
Version | 1.0.1 |
In Bioconductor since | BioC 3.9 (R-3.6) ( |
License | GPL-2 |
Depends | R (>= 3.6), SummarizedExperiment, S4Vectors |
Imports | DESeq2, mgcv (>= 1.8-24), BiocParallel, genefilter, methods, stats |
LinkingTo | |
Suggests | knitr, rmarkdown, testthat, ggplot2 |
SystemRequirements | |
Enhances | |
URL | github.com/reese3928/NBAMSeq |
BugReports | github.com/reese3928/NBAMSeq/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
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