:: DESCRIPTION
T-WPPDC is a minimally parameterized algorithm for both pattern discovery and sequence classification that directly incorporates positional information.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2011 Aug 1;27(15):2054-61. doi: 10.1093/bioinformatics/btr353. Epub 2011 Jun 17.
A tree-based approach for motif discovery and sequence classification.
Yan R1, Boutros PC, Jurisica I.
:: DESCRIPTION
The Teiresias algorithm is a combinatorial algorithm for the discovery of rigid patterns (motifs) in biological sequences.
::DEVELOPER
the Computational Medicine Center at the Sidney Kimmel Medical College of Thomas Jefferson University
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Tutorial for online or local use
Citation:
Bioinformatics. 1998;14(1):55-67.
Combinatorial pattern discovery in biological sequences: The TEIRESIAS algorithm.
Rigoutsos I1, Floratos A.
:: DESCRIPTION
SignalSpider is a probabilistic model for deciphering the combinatorial binding of DNA-binding proteins. The model (SignalSpider) aims at modeling and extracting patterns from multiple ChIP-Seq profiles.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
SignalSpider: Probabilistic Pattern Discovery on Multiple Normalized ChIP-Seq Signal Profiles.
Wong KC, Li Y, Peng C, Zhang Z.
Bioinformatics. 2014 Sep 5. pii: btu604.
:: DESCRIPTION
Given a sample of (unaligned) sequences belonging to a structural or functional family of proteins, Protomata-Learner infers automata characterizing the family.
::DEVELOPER
Dyliss (DYnamics, Logics and Inference for biological Systems and Sequences)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Strmat consists of a simple menu system and source C code implementing many exact matching methods, particularly those based on the Z algorithm and on suffix trees.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
D. Gusfield;
Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology
Cambridge University Press, 1997
