metaseqR2
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
Bioconductor version: 3.24 · Package version: 1.25.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("metaseqR2")Details
| Maintainer | Panagiotis Moulos <moulos@fleming.gr> |
| Author | Panagiotis Moulos [aut, cre] |
| License | GPL (>= 3) |
| URL | http://www.fleming.gr |
| Bug Reports | https://github.com/pmoulos/metaseqR2/issues |
| Downloads rank | 589 |
| Source branch | devel |
| 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 |
Download
Follow the installation instructions to use this package in your R session.
| Source package | metaseqR2_1.25.0.tar.gz |
| Windows binary (x86_64) | metaseqR2_1.25.0.zip |
| macOS binary (arm64) | metaseqR2_1.25.0.tgz |
| macOS binary (x86_64) | metaseqR2_1.25.0.tgz |
Dependencies
Depends: R (>= 4.0.0), DESeq2, limma, locfit, splines
Imports: ABSSeq, Biobase, BiocGenerics, BiocParallel, biomaRt, Biostrings, corrplot, DSS, DT, EDASeq, edgeR, genefilter, Seqinfo, 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
Suggests: BiocStyle, BiocManager, BSgenome, knitr, RMySQL, RUnit
Enhances: TCC