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MOODS is a suite of algorithms for matching position weight matrices (PWM) against DNA sequences. It features advanced matrix matching algorithms implemented in C++ that can be used to scan hundreds of matrices against chromosome-sized sequences in few seconds. MOODS can also process high-order PWMs with dependencies between adjacent positions and sequence variants such as SNPs, insertions and deletions.
MOODS can be used as standalone analysis tool or as a component in larger programs, using C++ or Python interfaces.
MOODS is dual-licenced under GPL version 3 license and Biopython license.