To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ideal")
In most cases, you don't need to download the package archive at all.
ideal
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Interactive Differential Expression AnaLysis
Bioconductor version: Release (3.5)
This package provides functions for an Interactive Differential Expression AnaLysis of RNA-sequencing datasets, to extract quickly and effectively information downstream the step of differential expression. A Shiny application encapsulates the whole package.
Author: Federico Marini [aut, cre]
Maintainer: Federico Marini <marinif at uni-mainz.de>
Citation (from within R,
enter citation("ideal")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ideal")
Documentation
| HTML | R Script | ideal User's Guide |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | DifferentialExpression, GUI, GeneExpression, GeneSetEnrichment, QualityControl, RNASeq, ReportWriting, Sequencing, Software, Visualization |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (0.5 years) |
| License | MIT + file LICENSE |
| Depends | topGO |
| Imports | DESeq2, SummarizedExperiment, GenomicRanges, IRanges, S4Vectors, ggplot2 (>= 2.0.0), d3heatmap, pheatmap, pcaExplorer, IHW, gplots, UpSetR, goseq, stringr, plyr, dplyr, limma, GOstats, GO.db, AnnotationDbi, shiny (>= 0.12.0), shinydashboard, shinyBS, DT, rentrez, rintrojs, knitr, rmarkdown, shinyAce, BiocParallel, grDevices, methods |
| LinkingTo | |
| Suggests | testthat, BiocStyle, airway, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, DEFormats, edgeR |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/federicomarini/ideal |
| BugReports | https://github.com/federicomarini/ideal/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ideal_1.0.0.tar.gz |
| Windows Binary | ideal_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | ideal_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ideal |
| Package Short Url | http://bioconductor.org/packages/ideal/ |
| Package Downloads Report | Download Stats |
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