CRISPR Recognition Tool

Current version:  1.1  (March 14, 2007)
Operating System:  Platform independent
License:  Public domain software
Requirements:  Java Runtime Environment (JRE), which is probably on your machine.  Currently, CRT only supports FASTA file format.

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Graphical User Interface (GUI)

Instructions:
    Download CRT1.1_exe.zip and unzip the file to a folder.  (The extracted file should be named CRT1.1_exe.jar)
    Double-click the extracted file.  (Or, at the command line type:  java -jar CRT1.1_exe.jar)
   
    Please, click here if the above instructions do not work.

Source Code:  CRT1.1_scr.zip

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Command Line Interface (CLI)
Updated (June 12, 2008):  Uses a more unix-like command line interface; allows reading of files from any directory

Instructions:
    Download CRT1.2-CLI.jar.zip and unzip the file to a folder.  (The extracted file should be named CRT1.2-CLI.jar)
    At the command line type:  java -cp CRT1.2-CLI.jar crt [options] inputFile [outputFile]
   
    Please, click here for a more detailed description of the command line interface.
    Please, click here if the above instructions do not work.  

Source Code:  CRT1.2-CLI_src.zip

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Contact/Comments
Report any bugs, questions or suggestions to:  bland.charles<insert at symbol>gmail.com
Also, I would be interested to hear about any projects that use CRT.

Citation
Bland C, Ramsey TL, Sabree F, Lowe M, Brown K, Kyrpides NC, Hugenholtz P:
CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats. BMC Bioinformatics. 2007 Jun 18;8(1):209