:: DESCRIPTION
Sequedex classifies DNA sequences by analyzing collections of sequences in new ways.
::DEVELOPER
The Sequedex Team
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Joel Berendzen et al.
Rapid phylogenetic and functional classification of short genomic fragments with signature peptides
BMC Research Notes 2012, 5:460 doi:10.1186/1756-0500-5-460
:: DESCRIPTION
PgSA (Pseudogenome Suffix Array) is a compact index for collections of reads from sequencing. It allows to ask for presence of k-mers in the reads.
::DEVELOPER
:: SCREENSHOTS
n/a
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PLoS One. 2015 Jul 16;10(7):e0133198. doi: 10.1371/journal.pone.0133198. eCollection 2015.
Indexing Arbitrary-Length k-Mers in Sequencing Reads.
Kowalski T, Grabowski S, Deorowicz S.
:: DESCRIPTION
spkTools contains functions that can be used to compare expression measures on different array platforms.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2008 Oct;36(17):e108. doi: 10.1093/nar/gkn430. Epub 2008 Aug 1.
Consolidated strategy for the analysis of microarray spike-in data.
McCall MN, Irizarry RA.
:: DESCRIPTION
CBT++ (Computational Biology Tools) is a collection of C++ classes intended to simplify the development of complex computational biology applications. It includes basic functionality to manipulate sequences, classes to parse common kinds of files, and implementations of various sequence analysis algorithms.
::DEVELOPER
Human Genome Sequencing Center, Baylor College of Medicine
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
GiRaF (Graph-incompatibility-based Reassortment Finder) is a computational tool for identification of reassortments in influenza viruses from sequence databases of isolates.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Niranjan Nagarajan and Carl Kingsford.
GiRaF: robust, computational identification of influenza reassortments via graph mining,
Nuc. Acids Res. 39(6):e34 (2011).
:: DESCRIPTION
phylotree is a collection of programs for cophylogeny testing
::DEVELOPER
Collaboratory in Computing for Bioinformatics and Biomedical Research
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Front Neurosci. 2010 Aug 3;4. pii: 47. doi: 10.3389/fnins.2010.00047. eCollection 2010.
Statistical phylogenetic tree analysis using differences of means.
Arnaoudova E, Haws DC, Huggins P, Jaromczyk JW, Moore N, Schardl CL, Yoshida R.
:: DESCRIPTION
Cluster is a simple unix C++ program that builds collections of interacting items from records containing interacting pairs or larger fragments. It is part of the algorithm used in Reduce to find H-bond “cliques”
::DEVELOPER
:: SCREENSHOTS
Command Line
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Cluster is free software available under the terms of its own BSD-style license.
