This package is for version 3.19 of Bioconductor;
for the stable, up-to-date release version, see
metaseqR2.
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
Bioconductor version: 3.19
Provides an interface to several normalization and statistical testing packages for RNA-Seq gene expression data. Additionally, it creates several diagnostic plots, performs meta-analysis by combinining the results of several statistical tests and reports the results in an interactive way.
Author: Panagiotis Moulos [aut, cre]
Maintainer: Panagiotis Moulos <moulos at fleming.gr>
Citation (from within R, enter citation("metaseqR2")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("metaseqR2")
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("metaseqR2")
Details
biocViews
ATACSeq,
AlternativeSplicing,
BatchEffect,
Bayesian,
BiomedicalInformatics,
CellBiology,
ChIPSeq,
Clustering,
DataImport,
DifferentialExpression,
DifferentialSplicing,
Epigenetics,
FunctionalGenomics,
GeneExpression,
GeneSetEnrichment,
ImmunoOncology,
MultipleComparison,
Normalization,
Preprocessing,
ProprietaryPlatforms,
QualityControl,
RNASeq,
Regression,
ReportWriting,
Sequencing,
Software,
SystemsBiology,
TimeCourse,
Transcription,
Transcriptomics,
WorkflowStep
Version
1.16.0
In Bioconductor since
BioC 3.11 (R-4.0) (4.5 years)
License
GPL (>= 3)
Imports
ABSSeq,
Biobase,
BiocGenerics,
BiocParallel,
biomaRt,
Biostrings,
corrplot,
DSS,
DT,
EDASeq,
edgeR,
genefilter,
GenomeInfoDb,
GenomicAlignments,
GenomicFeatures,
GenomicRanges,
gplots, graphics, grDevices,
harmonicmeanp,
heatmaply,
htmltools,
httr,
IRanges,
jsonlite,
lattice,
log4r,
magrittr,
MASS,
Matrix, methods,
NBPSeq,
pander, parallel,
qvalue,
rmarkdown,
rmdformats,
Rsamtools,
RSQLite,
rtracklayer,
S4Vectors, stats,
stringr,
SummarizedExperiment,
survcomp,
txdbmaker, utils,
VennDiagram,
vsn,
yaml,
zoo
System Requirements
See More
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Package Archives
Follow Installation instructions to use this package in your R session.
Source Repository
git clone https://git.bioconductor.org/packages/metaseqR2
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/metaseqR2