bbq Discovering cis-regulatory modules
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find factor Transcription genome sequence

bbq Description

bbq is a compact tool designed to assist you in discovering clusters of transcription factor binding sites that occur simultaneously in several genome sequences. The program can be run in command line mode in order to enter the arguments required for finding the clusters. In order to find the cis-regulatory modules you need to solve a certain combinatorial and geometric optimization problem. This tool can perform this operation quickly and with minimum effort on your behalf.

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