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Exon skipping identification software tools | RNA sequencing data analysis

Considering that more than 90% of the human multi-exon genes have been found to undergo alternative splicing (AS), exon-skipping could be one of the most important ways to steer transcriptional regulation. RNA-seq enables better characterization and…
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AltAnalyze
Desktop

AltAnalyze

An easy-to-use application for microarray, RNA-Seq and metabolomics analysis.…

An easy-to-use application for microarray, RNA-Seq and metabolomics analysis. For splicing sensitive platforms (RNA-Seq or Affymetrix Exon, Gene and Junction arrays), AltAnalyze will assess…

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AStalavista
Desktop
Web

AStalavista

Allows to dynamically identify, extract and display complex alternative…

Allows to dynamically identify, extract and display complex alternative splicing (AS) events from annotated genes. AStalavista is an alternative splicing transcriptional landscape visualization tool…

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spliceR
Desktop

spliceR

Sorts alternative splicing (AS) and discovers coding potential. spliceR…

Sorts alternative splicing (AS) and discovers coding potential. spliceR simplifies downstream sequence analysis by allowing annotation of genomic coordinates of the differentially spliced elements.…

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Alt Event…
Desktop

Alt Event Finder

A software tool for deriving data-driven alternative splicing (AS) events from…

A software tool for deriving data-driven alternative splicing (AS) events from RNA-seq data.

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GESS
Desktop

GESS Graph-based Exon-Skipping Scanner

Detects de novo exon-skipping events directly from raw RNA-seq data without…

Detects de novo exon-skipping events directly from raw RNA-seq data without prior knowledge of gene-annotation information. First, we build a splicing-site-linking graph from splicing-aware aligned…

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DIEGO
Desktop

DIEGO DIfferential altErnative splicinG detectiOn

Finds differential alternative splicing (DAS) in large RNASeq data sets. DIEGO…

Finds differential alternative splicing (DAS) in large RNASeq data sets. DIEGO combines the simplicity of a count based approach with the ability to report DAS of yet unknown isoforms. It includes…

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SplicingViewer
Desktop

SplicingViewer

Developed for unambiguous detection, annotation and visualization of splice…

Developed for unambiguous detection, annotation and visualization of splice junctions and alternative splicing events from RNA-Seq data.

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ASprofile
Desktop

ASprofile

A suite of programs for extracting, quantifying and comparing alternative…

A suite of programs for extracting, quantifying and comparing alternative splicing (AS) events from RNA-seq data.

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SplicingTypesAn…
Desktop

SplicingTypesAnno

Allows users to extract, annotate and analyze alternative splicing (AS) types…

Allows users to extract, annotate and analyze alternative splicing (AS) types for sequence alignment files from RNA-Seq. SplicingTypesAnno can detect the novel splicing directly from the aligned raw…

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dSpliceType
Desktop

dSpliceType

A generalized framework to systematically investigate the synergistic and…

A generalized framework to systematically investigate the synergistic and antagonistic effects of differential splicing and differential expression. dSpliceType detects and prioritizes a list of…

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Sircah
Desktop

Sircah

An application written in python that detects and visualizes alternative…

An application written in python that detects and visualizes alternative splicing events using spliced alignments. Sircah takes as input transcript models in the GFF3 format allowing the user the…

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ESFinder
Desktop

ESFinder

A random forest classifier to identify exon skipping (ES) events from RNA-Seq…

A random forest classifier to identify exon skipping (ES) events from RNA-Seq data. ESFinder conducts thorough studies on predicting features and figures out proper features according to their…

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ESclassifier
Desktop

ESclassifier Exon Skipping classifier

A supervised machine learning-based approach for exon skipping event detection…

A supervised machine learning-based approach for exon skipping event detection from RNA-Seq data. ESclassifier chooses Random Forest as the classification algorithms. ESclassifier is designed to…

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