Biocview "AlternativeSplicing"

Aberrant splice junction analysis with associated mutations

A framework to prioritize DNA methylation aberrations based on conformational and cis-regulatory element enrichment

alpine

Analysis of alternative splicing using RNA-Seq

Analysis of Alternative Splicing Using RNA-Seq

An effective identification of alternative splicing events using junction arrays and RNA-Seq data

An R Package for Adjusting Bias in Gene Set Enrichment Analysis

An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms

An R package for the easy provision of simple but complete tab-delimited genomic annotation from a variety of sources and organisms

An R Package for Unbiased Splicing Pathway Analysis

An R Package for Unbiased Splicing Pathway Analysis in RNAseq data

ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events

Assess Differential Gene Expression Experiments with ERCC Controls

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Classification of alternative splicing and prediction of coding potential from RNA-seq data.

Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and ambiguity

Core Engine for NxtIRF: a User-Friendly Intron Retention and Alternative Splicing Analysis using the IRFinder Engine

Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them

Detecting abberant splicing events from RNA-sequencing data

Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq

Empirical Analysis of Digital Gene Expression Data in R

Estimate Promoter Activity from RNA-Seq data

Fast lasso-based isoform prediction as a flow problem

Find RAre Splicing Events in RNA-Seq Data

Fishpond: differential transcript and gene expression with inferential replicates

Fishpond: downstream methods and tools for expression data

Functional Annotation of Custom Transcriptomes

Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics search

Generate customized protein databases from NGS data for proteomics search

Gene Set Regulation (GS-Reg)

Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Graphical User Interface for High Performance BAM-based binary alternative splicing event quantitation, differential analysis, and visualisation

Identification of genetic Variants affecting Alternative Splicing

Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.

Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data

ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers

Inference of differential exon usage in RNA-Seq

InPAS: a bioconductor package for the identification of novel alternative PolyAdenylation Sites (PAS) using RNA-seq data

Integrative analysis of Multi-omics data for Alternative Splicing

interactive analysis and visualization of alternative splicing in R

Intron-Exon Retention Estimator

L1-regularization based methods for detection of differential splicing

Linear Models for Microarray Data

Make read coverage plots from BigWig files

Mapping Alternative Splicing Events to pRoteins

Modifying splice site usage by changing the mRNP code, while maintaining the genetic code

Multiple Beta t-Tests

Negative Binomial Beta t-Test

Negative Binomial Models to detect Differential Splicing

PAIRADISE: Paired analysis of differential isoform expression

Predict MicroExons in Plant Genomes

Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)

Quantification and Visualization of Variations of Splicing in Population

Quantification and Visulization of Variations of Splicing in Population

Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression

Retrieves Condition-Specific Variants in RNA-Seq Data

R Interface with InterMine-Powered Databases

Shiny app for canonical and back splicing analysis (i.e. circular and mRNA analysis)

snpEva: an R package for retrieving neighboring nucleotides of an SNV

Splice event prediction and quantification from RNA-seq data

Splice Interpreter of Transcripts

Splicing Diversity Analysis for Transcriptome Data

Statistical Utility for RBP (RNA binding protein) Functions

Tools for spliced gene structure manipulation and analysis

Transcript expression inference and differential expression analysis for RNA-seq data

Transcriptome instability analysis

VarCon

Biocview "AlternativeSplicing"

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