IntEREst
Intron-Exon Retention Estimator
Bioconductor version: Release (3.19)
This package performs Intron-Exon Retention analysis on RNA-seq data (.bam files).
Author: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>, Dario Greco <dario.greco at helsinki.fi>, Mikko Frilander <Mikko.Frilander at helsinki.fi>
Maintainer: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>, Mikko Frilander <Mikko.Frilander at helsinki.fi>
Citation (from within R, enter
citation("IntEREst")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("IntEREst")
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("IntEREst")
IntEREst, Intron Exon Retention Estimator | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Alignment, AlternativeSplicing, Coverage, DifferentialExpression, DifferentialSplicing, ImmunoOncology, Normalization, RNASeq, Sequencing, Software |
Version | 1.28.0 |
In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
License | GPL-2 |
Depends | R (>= 3.5.0), GenomicRanges, Rsamtools, SummarizedExperiment, edgeR, S4Vectors, GenomicFiles |
Imports | seqLogo, Biostrings, GenomicFeatures, txdbmaker, IRanges, seqinr, graphics, grDevices, stats, utils, grid, methods, DBI, RMySQL, GenomicAlignments, BiocParallel, BiocGenerics, DEXSeq, DESeq2 |
System Requirements | |
URL |
See More
Suggests | clinfun, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19 |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | IntEREst_1.28.0.tar.gz |
Windows Binary | IntEREst_1.28.0.zip (64-bit only) |
macOS Binary (x86_64) | IntEREst_1.28.0.tgz |
macOS Binary (arm64) | IntEREst_1.28.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/IntEREst |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/IntEREst |
Bioc Package Browser | https://code.bioconductor.org/browse/IntEREst/ |
Package Short Url | https://bioconductor.org/packages/IntEREst/ |
Package Downloads Report | Download Stats |