ASpediaFI

This package is for version 3.15 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see ASpediaFI.

ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events


Bioconductor version: 3.15

This package provides functionalities for a systematic and integrative analysis of alternative splicing events and their functional interactions.

Author: Doyeong Yu, Kyubin Lee, Daejin Hyung, Soo Young Cho, Charny Park

Maintainer: Doyeong Yu <parklab.bi at gmail.com>

Citation (from within R, enter citation("ASpediaFI")):

Installation

To install this package, start R (version "4.2") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("ASpediaFI")

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("ASpediaFI")
ASpediaFI.pdf PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews AlternativeSplicing, Annotation, Coverage, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Network, NetworkInference, Pathways, Reactome, Sequencing, Software, Transcription, Visualization
Version 1.10.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License GPL-3
Depends R (>= 3.6.0), SummarizedExperiment, ROCR
Imports BiocParallel, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, IVAS, Rsamtools, biomaRt, limma, S4Vectors, stats, DRaWR, GenomeInfoDb, Gviz, Matrix, dplyr, fgsea, reshape2, igraph, graphics, e1071, methods, rtracklayer, scales, grid, ggplot2, mGSZ, utils
System Requirements
URL
Bug Reports https://github.com/nachoryu/ASpediaFI
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Suggests knitr
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ASpediaFI_1.10.0.tar.gz
Windows Binary ASpediaFI_1.10.0.zip
macOS Binary (x86_64) ASpediaFI_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ASpediaFI
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ASpediaFI
Bioc Package Browser https://code.bioconductor.org/browse/ASpediaFI/
Package Short Url https://bioconductor.org/packages/ASpediaFI/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.15 Source Archive