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MotifOrganizer
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MotifOrganizer is designed to cluster large sets of DNA sequence motifs to
identify common patterns. Different motif widths are allowed. It uses a
two-stage divide-conquer-combine strategy to achieve scalability and
efficiency. The program and scripts are written in C++ and Perl, and can be
run on Linux, Unix, Windows and Mac OS X as a command line executable. The
program was co-developed with Misha Bilenky, Gordon Robertson, Steven Jones
from Canada's BC Cancer Agency Genome Sciences Centre, and Gang Su at the
Bioinformatics Program at University of Michigan.
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Documentation |
Includes the manual and the manuscript describing MotifOrganizer.
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Supplementary Text |
Supplementary text, tables and figures. |
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Datasets used in this study |
Data files used in our study. |
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Full cisRED clustering result |
Gene names, sequences and FASTA format motif collections.
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All cisRED cluster match result |
Gene names, sequences and FASTA format motif collections.
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Browse top clusters |
Logo plots of the top 500 cisRED Human v.2 29.5K gene/motif clusters.
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Download program |
Bundled Perl scripts and pre-compiled executables needed to run MotifOrganizer |
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Update & Bug Log |
Log of updates, bugs and fixes (currently empty). |
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Register |
If you use MotifOrganizer, please register with us. It helps us to send you updates and bug-fixes.
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Contact
For bug report, questions or comments, please contact Steve Qin (qin@umich.edu).
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