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Decision-support software tools | Bisulfite sequencing data analysis

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methyLiftover
Desktop

methyLiftover

A method to map DNA methylation data from bisulfite sequencing approaches to…

A method to map DNA methylation data from bisulfite sequencing approaches to CpG sites measured with the widely used Illumina methylation bead-array platforms. Correlations and median absolute…

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GREAT
Web

GREAT

Predicts functions of cis-regulatory regions. Many coding genes are well…

Predicts functions of cis-regulatory regions. Many coding genes are well annotated with their biological functions. Non-coding regions typically lack such annotation. GREAT assigns biological meaning…

Epiviz
Web
Desktop

Epiviz

An interactive visualization tool for functional genomics data. Epiviz supports…

An interactive visualization tool for functional genomics data. Epiviz supports genome navigation like other genome browsers, but allows multiple visualizations of data within genomic regions using…

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EpiExplorer
Web

EpiExplorer

A web tool that allows you to use large reference epigenome datasets for your…

A web tool that allows you to use large reference epigenome datasets for your own analysis without complex scripting or laborious preprocessing.

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EpiGRAPH
Web

EpiGRAPH

Enables biologists to uncover hidden associations in vertebrate genome and…

Enables biologists to uncover hidden associations in vertebrate genome and epigenome datasets. Users can upload sets of genomic regions and EpiGRAPH will test multiple attributes (including DNA…

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BiQ Analyzer HT
Desktop

BiQ Analyzer HT

It currently allows to process an amount of bisulfite sequencing reads obtained…

It currently allows to process an amount of bisulfite sequencing reads obtained in one or several bisulfite sequencing experiments.

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ChAsE
Desktop

ChAsE Chromatin Analysis and Exploration

A cross-platform desktop application developed for interactive visualization,…

A cross-platform desktop application developed for interactive visualization, exploration and clustering of epigenomic data such as ChIP-seq experiments. ChAsE is designed and developed in close…

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The Genomic…
Web

The Genomic HyperBrowser

A comprehensive system for statistical analysis of genomic tracks. Through the…

A comprehensive system for statistical analysis of genomic tracks. Through the provision of several highly customizable components for processing and statistical analysis of genomic tracks, the…

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EVORA
Desktop

EVORA Epigenetic Variable Outliers for Risk prediction Analysis

An R package for quantifying variation in DNA methylation as a cancer…

An R package for quantifying variation in DNA methylation as a cancer biomarker. EVORA uses differential variability to select features, and then uses an adaptive index algorithm over these features…

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PRIMEGENS
Web

PRIMEGENS

This algorithm is used to design primers for each of the specific sequences…

This algorithm is used to design primers for each of the specific sequences given by the user in the query input file against any alternate potential hybridization with any of the sequences given in…

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methylPipe
Desktop

methylPipe

Memory efficient analysis of base resolution DNA methylation data in both the…

Memory efficient analysis of base resolution DNA methylation data in both the CpG and non-CpG sequence context. Integration of DNA methylation data derived from any methodology providing base- or…

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Bis-Class
Desktop

Bis-Class

A tool which is made for classifying methylation status from BS-seq data.

A tool which is made for classifying methylation status from BS-seq data.

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Annotation-Modu…
Web

Annotation-Modules

A web tool for the detection of significant enrichment and depletion of…

A web tool for the detection of significant enrichment and depletion of combinations of annotations is presented. Annotation-Modules accepts 12 different input IDs, allows free selection of the…

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