Bisulfite sequencing data analysis bioinformatics software tools

DNA methylation contributes to the epigenetic regulation of many key developmental processes including genomic imprinting, X-inactivation, genome stability and gene regulation. Bisulfite conversion of genomic DNA combined with next-generation sequencing (BS-seq) is widely used…

BS-seq analysis steps

BS-seq analysis workflow

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BS-seq analysis workflow schema

Most recent bioinformatics tools

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Pyrotools
Desktop

Pyrotools

Represents the consensus sequences in a region of interest (ROI). Pyrotools is…

Represents the consensus sequences in a region of interest (ROI). Pyrotools is based on the graph technique that resembles the partial order graph or variant graph. It can model error patterns in the…

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SMART
Desktop

SMART Specific Methylation Analysis and Report Tool

Detects the cell type-specific methylation marks by integrating multiple…

Detects the cell type-specific methylation marks by integrating multiple methylomes from human cell lines and tissues. SMART is an entropy-based framework focused on integrating of a large number of…

bumphunter
Desktop

bumphunter

Allows to accomplish bump hunting in genomic data. bumphunter addresses batch…

Allows to accomplish bump hunting in genomic data. bumphunter addresses batch effects, exploits the correlation structure of the microarray data to identify differentially methylated regions (DMRs),…

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DMRcaller
Desktop

DMRcaller

Recognizes differentially methylated regions between the conditions in CG and…

Recognizes differentially methylated regions between the conditions in CG and non-CG context. DMRcaller utilizes bisulfite sequencing data in two conditions to proceed. It is able to extract from the…

Most popular analytical software

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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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Bismark
Desktop

Bismark

A software package to map and determine the methylation state of BS-Seq reads.…

A software package to map and determine the methylation state of BS-Seq reads. Bismark is easy to use, very flexible and is the first published BS-Seq aligner to seamlessly handle single- and…

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GBSA
Desktop

GBSA Genome Bisulfite Sequencing Analyser

An open-source software tool capable of analysing whole-genome bisulfite…

An open-source software tool capable of analysing whole-genome bisulfite sequencing data with either a gene-centric or gene-independent focus. GBSA’s output can be easily integrated with other…

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WashU…
Web

WashU Epigenome Browser

A genome browser focusing on the human epigenome. The Browser is web-based and…

A genome browser focusing on the human epigenome. The Browser is web-based and it extends the seminal concept invented by the UCSC Cancer Genomics Browser to support large, sequencing-based datasets.…

Curators for BS-seq analysis

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