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MethylCap-seq data analysis bioinformatics software tools

MethylCap-seq is a robust procedure for genome-wide profiling of DNA methylation. The approach consists of the capture of methylated DNA using the MBD domain of MeCP2, and subsequent next-generation sequencing of eluted DNA. Elution of the captured…
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MethylAction
Desktop

MethylAction

An R package for detecting differentially methylated regions (DMRs) from…

An R package for detecting differentially methylated regions (DMRs) from enrichment-based techniques for sequencing DNA methylation genome-wide. These techniques include MBD-isolated Genome…

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MethylCapSig
Desktop

MethylCapSig

Provides several test statistics useful for detecting differentially methylated…

Provides several test statistics useful for detecting differentially methylated regions based on MethylCap-seq data. MethylCapSig provides five such test statistics to test equality of mean vectors…

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CAME
Desktop

CAME Chromatin Accessibility and Methylation

Identifies chromatin accessibility from nucleosome occupancy and methylome…

Identifies chromatin accessibility from nucleosome occupancy and methylome sequencing (NOMe-Seq). CAME uses a seed extension approach and non-parametric mixture model to identify open and closed…

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MAM-pipeline
Desktop

MAM-pipeline

A methodology based on classical population genetic theory, i.e. the…

A methodology based on classical population genetic theory, i.e. the Hardy-Weinberg theorem, that combines methylomic data from MethylCap-seq with associated SNP profiles to identify monoallelically…

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PrEMeR-CG
Desktop

PrEMeR-CG

A computational method that computes nucleotide-resolution methylation values…

A computational method that computes nucleotide-resolution methylation values from capture-based data by incorporating fragment length profiles into a model of methylation analysis. The described…

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