This is the Linux app named came whose latest release can be downloaded as came-0.0.1.jar. It can be run online in the free hosting provider OnWorks for workstations.
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came
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DESCRIPTION
Chromatin accessibility plays a key role in epigenetic regulation of gene activation and silencing. Open chromatin regions allow regulatory elements such as transcription factors and polymerases to bind for gene expression while closed chromatin regions prevent the activity of transcriptional machinery. Recently, nucleosome occupancy and methylome sequencing (NOMe-seq) has been developed for simultaneously profiling of chromatin accessibility and DNA methylation on single molecules. However, there is no computational method for analyzing NOMe-seq data.
Results: In this article, we present CAME, a seed-extension based approach that identifies chromatin accessibility from NOMe-seq. The efficiency and effectiveness of CAME were demonstrated through comparisons with other existing techniques on both simulated and real data, and the results show that our method not only can precisely identify chromatin accessibility but also outperforms other methods.
Audience
End Users/Desktop
User interface
Command-line
Programming Language
Java
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/came/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
