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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

Experts in BS-seq analysis

They share and annotate bioinformatics tools

Most recent bioinformatics tools

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TRACE-RRBS
Desktop

TRACE-RRBS Targeted Alignment and Artificial Cytosine Elimination for RRBS

Maps reduced representation bisulfite sequencing (RRBS) reads and determination…

Maps reduced representation bisulfite sequencing (RRBS) reads and determination of the CpG methylation status of each cytosine locus. TRACE-RRBS aligns sequence reads to a small fraction of the…

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WashU…
Dataset

WashU Epigenome Browser

Provides an online resource to visualize long range chromatin interaction data.…

Provides an online resource to visualize long range chromatin interaction data. WashU Epigenome Browser is an integrated data visualization and analysis platform for the epigenomics research…

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PolyAna
Desktop

PolyAna

Enables Ion Torrent sequencing data processing to select homopolymers from the…

Enables Ion Torrent sequencing data processing to select homopolymers from the detected somatic mutations. PolyAna identifies automatically and annotates variants as potential homopolymers based on…

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BSVF
Desktop

BSVF BS-virus-finder

Detects viral integration breakpoints in whole human genomes. BSVF is based on…

Detects viral integration breakpoints in whole human genomes. BSVF is based on bwa-meth and can find the virus breakpoints. This tool can search breakpoints in over 5 out of 9 regions which are…

Most popular analytical software and databases

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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…

CGmapTools
Desktop

CGmapTools

Provides a standard for bisulfite sequencing data related manipulation.…

Provides a standard for bisulfite sequencing data related manipulation. CGmapTools is a command-line bisulfite sequencing analysis toolkit with enhanced features on single-nucleotide variant (SNV)…

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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…

BS Seeker
Desktop

BS Seeker

Allows to map the bisulfite-treated short reads. BS Seeker is a bisulfite…

Allows to map the bisulfite-treated short reads. BS Seeker is a bisulfite sequencing (BS) alignment tool that performs genome indexing, read alignment and DNA methylation levels calling for each…

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