alpine
This package is for version 3.11 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see alpineData.
alpine
Bioconductor version: 3.11
Fragment sequence bias modeling and correction for RNA-seq transcript abundance estimation.
Author: Michael Love, Rafael Irizarry
Maintainer: Michael Love <michaelisaiahlove at gmail.com>
Citation (from within R, enter
citation("alpine")
):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("alpine")
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("alpine")
alpine | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | AlternativeSplicing, BatchEffect, Coverage, DifferentialSplicing, GeneExpression, Normalization, QualityControl, RNASeq, Sequencing, Software, Transcription, Visualization |
Version | 1.14.0 |
In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
License | GPL (>=2) |
Depends | R (>= 3.3) |
Imports | Biostrings, IRanges, GenomicRanges, GenomicAlignments, Rsamtools, SummarizedExperiment, GenomicFeatures, speedglm, splines, graph, RBGL, stringr, stats, methods, graphics, GenomeInfoDb, S4Vectors |
System Requirements | |
URL |
See More
Suggests | knitr, testthat, alpineData, rtracklayer, ensembldb, BSgenome.Hsapiens.NCBI.GRCh38, RColorBrewer |
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 | alpine_1.14.0.tar.gz |
Windows Binary | alpine_1.14.0.zip |
macOS 10.13 (High Sierra) | alpine_1.14.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/alpine |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/alpine |
Bioc Package Browser | https://code.bioconductor.org/browse/alpine/ |
Package Short Url | https://bioconductor.org/packages/alpine/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.11 | Source Archive |