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ChAsE: chromatin analysis and exploration tool.

ABSTRACT: : We present ChAsE, 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 bioinformaticians with a focus on usability and interactivity. Data can be analyzed through k-means clustering, specifying presence or absence of signal in epigenetic data and performing set operations between clusters. Results can be explored in an interactive heat map and profile plot interface and exported for downstream analysis or as high quality figures suitable for publications.

Availability and implementation

Software, source code (MIT License), data and video tutorials available at http://chase.cs.univie.ac.at CONTACT: : mkarimi@brc.ubc.ca or torsten.moeller@univie.ac.atSupplementary information: Supplementary data are available at Bioinformatics online.

SUBMITTER: Younesy H

PROVIDER: S-EPMC5079470 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature

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ChAsE: chromatin analysis and exploration tool.

Younesy Hamid H Nielsen Cydney B CB Lorincz Matthew C MC Jones Steven J M SJ Karimi Mohammad M MM Möller Torsten T

Bioinformatics (Oxford, England) 20160704 21

: We present ChAsE, 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 bioinformaticians with a focus on usability and interactivity. Data can be analyzed through k-means clustering, specifying presence or absence of signal in epigenetic data and performing set operations between clusters. Results can b ...[more]

PMID: 27378294

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