ASpediaFI

This package is for version 3.12 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

DOI: 10.18129/B9.bioc.ASpediaFI

Bioconductor version: 3.12

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 "4.0") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AlternativeSplicing, Annotation, Coverage, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Network, NetworkInference, Pathways, Reactome, Sequencing, Software, Transcription, Visualization

Version 1.4.0

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

Suggests knitr

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 ASpediaFI_1.4.0.tar.gz

Windows Binary ASpediaFI_1.4.0.zip

macOS 10.13 (High Sierra) ASpediaFI_1.4.0.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 3.12 Source Archive