:: DESCRIPTION
Seqcrawler provides a complete open source search and store solution for labs or platforms needing to manage large amount of data/meta-data with a flexible and customizable web interface.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Seqcrawler: biological data indexing and browsing platform.
Sallou O, Bretaudeau A, Roult A.
BMC Bioinformatics. 2012 Jul 24;13:175. doi: 10.1186/1471-2105-13-175.
:: DESCRIPTION
PSIST (protein structures using suffix trees) uses suffix trees to index protein 3D structure. It first converts the 3D structure into a structure-feature sequence over a new structural alphabet, which is then used to index protein structures. The PSIST index makes it very fast to query for a matching structural fragment.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Feng Gao and Mohammed J. Zaki,
PSIST: A Scalable Approach to Indexing Protein Structures using Suffix Trees.
Journal of Parallel and Distributed Computing, 68(1):55-63. Jan 2008
:: DESCRIPTION
Typhon is an algorithm for building an index from a multiple alignment for use in seeding local alignments to a query sequence.
::DEVELOPER
Jason Flannick , Serafim Batzoglou
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2005 Aug 12;33(14):4563-77. Print 2005.
Using multiple alignments to improve seeded local alignment algorithms.
Flannick J, Batzoglou S.
:: DESCRIPTION
cdbfasta/cdbyank: fast indexing/retrieval of fasta records from flat file databases. These two utilities are based on the “cdb” (Constant DataBase) concept and the file-based hashing algorithm developed by D.J. Bernstein
::DEVELOPER
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
