COHCAP

COHCAP (City of Hope CpG Island Analysis Pipeline, pronounced "co-cap") is an algorithm to analyze single-nucleotide resolution methylation data (Illumina 450k methylation array, targeted BS-Seq, etc.).

Please note:

1) The SourceForge version of COHCAP is no longer being updated. Please see the GitHub version:

https://github.com/cwarden45/COHCAP

This was the source repository for the Bioconductor version, with some changes after the decision to only provide the code through GitHub.

2) In addition to the original NAR paper, please see the following links:

Benchmarks: http://www.nature.com/protocolexchange/protocols/2965#/introduction

Protocol Exchange Files: http://sourceforge.net/projects/cohcap/files/Protocol_Exchange_Example.zip

3) Custom Annotation Files (including EPIC Array):

https://sourceforge.net/projects/cohcap/files/additional_Bioconductor_annotations.zip/download

Features

DNA methylation analysis
integration of methylation and gene expression data
graphical user interface for basic users

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License

Attribution Assurance License

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COHCAP Web Site

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Additional Project Details

Operating Systems

BSD, Windows

Languages

English

Intended Audience

Science/Research

User Interface

Java Swing

Programming Language

Java, Perl, S/R

Related Categories

Perl Bio-Informatics Software, Java Bio-Informatics Software, S/R Bio-Informatics Software

Registered

2012-10-23

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