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Bisulfite sequencing software tools

High-throughput sequencing software tools

BS-seq applications

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BS-seq workflow schema

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 to measure the methylation state of a whole genome, the methylome, at single-base resolution (Lister et al., 2009; Bock et al., 2010; Harris et al., 2010).

Most Recent Tools

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Aggregate on Intervals

OMIC_12442
Methylation scoring

Aggregate on Intervals
AgIn

A linear-time algorithm that combines the kinetic information for neighboring CpG sites…

A linear-time algorithm that combines the kinetic information for neighboring CpG sites and increases the confidence in identifying the methylation states of those sites. Using a practical read coverage of ∼30-fold from an inbred strain medaka…

new

Chromatin Analysis and Exploration

OMIC_12440
Interpretation

Chromatin Analysis and Exploration
ChAsE

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

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 collaboration with several groups of biologists and…

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Epiviz

OMIC_12439
Interpretation

Epiviz

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

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 scatterplots, heatmaps and other user-supplied…

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DeepCpG

OMIC_12257
Methylation scoring

DeepCpG

A computational approach based on deep neural networks to predict DNA methylation states…

A computational approach based on deep neural networks to predict DNA methylation states from DNA sequence and incomplete methylation profiles in single cells. We validate DeepCpG on mouse embryonic stem cells, where we report substantially more…

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