CAME specifications

Information


Unique identifier OMICS_14677
Name CAME
Alternative name Chromatin Accessibility and Methylation
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Takes tab-eliminated files from commonly used bisulfite alignment programs and methylation calling softwares.
Input format BSMAP, AMP
Output data Generate a tab-eliminated file that includes: chr chromosome name; start the start position of a closed (open) chromatin region; end the end position of a closed (open) chromatin region; #gchs the number of gchs within the closed (open) chromatin region; score the average methylation score of gchs within the closed (open) chromatin region; length the length of detected region.
Output format BED
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.0.1
Stability Stable
Requirements JVM
Maintained Yes

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Maintainer


  • person_outline Jeong-Hyeon Choi <>

Publication for Chromatin Accessibility and Methylation

CAME institution(s)
Cancer Center, Georgia Regents University, Augusta, GA, USA; Department of Biostatistics and Epidemiology, Georgia Regents University, Augusta, GA, USA; Department of Biochemistry and Molecular Biology, Georgia Regents University, Augusta, GA, USA; Department of Molecular Pharmacology and Experimental Therapeutics, Center for Individualized Medicine, Mayo Clinic, Chinahester, MN, USA; College of Electrical and Computer Engineering, Chungbuk National University, Cheongju, Korea; Department of Statistics, Sungshin Women’s University, Seoul, Korea; Department of Applied Research, Marine Biodiversity Institute of Korea, Seocheon, Korea
CAME funding source(s)
This work was partially supported by the National Institutes of Health [CA114229, AA019976, CA185833, and CA190429], Basic Science Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Science, ICT & Future Planning (No.2013R1A2A2A01068923), the MSIP(Ministry of Science, ICT and Future Planning), Korea, under the ITRC(Information Technology Research Center) support program (IITP-2016- H8501-16-1013) supervised by the IITP(Institute for Information & communication Technology Promotion) and Brain Korea 21.

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