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Fast Gene Sequence Search for Very Large Data File

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important script information
company name:
Binlin Wu
license: Shareware
minimum requirements: MATLAB 7.11 (2010b)
functional limitations:
Fast Gene Sequence Search for Very Large Data File description


A research fellow at Harvard asked me to write a program to search for gene sequence, such as d-de?TCCd-deOao, and record the next 4 codes. The data file was 14Gb. He tried some matlab codes, and the system froze, or kept running and never stopped.I first tested using a loop method (V1.0). It turned out it would take a month to finish 14Gb data on my 1.8GHz Core 2 Duo/3Gb RAM PC. Then I updated it to use matrix. It turned out it would only take 1.3 hours on my 1.8Gb PC or 40 minutes on my 2.33GHz Core 2 Duo/2Gb RAM PC. It beat any codes that he got using Python or other languages.I put the file here, and hopefully it will be useful to the people with the same situation.



Relates:
Month - Matrix - Duo - Hours - Minutes - Updated - Turned - Finish - Ghz
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supported os
Linux
Mac OSX
Macintosh
Win All, BSD, Solaris
stats
downloads 3
version 1.0
size in Kb 10
popularity   
494/377376
user rating 5/10
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