:: DESCRIPTION
Fasta File Comparer compares protein sequences from two different Fasta files and outputs the matching proteins and sequences to a text file.
::DEVELOPER
Matthew Monroe @ Biological MS Data and Software Distribution Center , Pacific Northwest National Laboratory
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Mapinspect features Map Comparison, marker highlighting and graphical display of Pair-wise recombination estimates on the final map.
MapInspect can display, print and save these images, and has no limit to the number of maps it can compare (but only neighbouring maps are compared). Maps can be flipped within MapINspect, an the on-screen order of the maps can be changed.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
The BopGenomes suite is a set of programs that compares genomes in terms of the presence/absence of short DNA segments without requiring genome alignment.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
exim is a program that compares two time-series expression profiles using the dynamic programming algorithm. To avoid bias due to differences in magnitudes, the vectors are first normalized such that each has zero mean and standard deviation of one. Unlike sequence comparison, gaps are not allowed, since the meaning of a gap is that a time delay is introduced. If two genes are co-expressed (possibly with a time-shift) it is unlikely that one will re-synchronize itself to the other, once they departed (a gap was introduced).
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
TaxonGap is a visualization tool for intra- and inter-species variation among individual biomarkers
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers,
Bioinformatics, 24(6), 866-867
:: DESCRIPTION
tYNA (TopNet-like Yale Network Analyzer), a Web system for managing, comparing and mining multiple networks, both directed and undirected. tYNA efficiently implements methods that have proven useful in network analysis, including identifying defective cliques, finding small network motifs (such as feed-forward loops), calculating global statistics (such as the clustering coefficient and eccentricity), and identifying hubs and bottlenecks etc.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
The tYNA platform for comparative interactomics: a web tool for managing, comparing and mining multiple networks.
Yip KY, Yu H, Kim PM, Schultz M, Gerstein M.
Bioinformatics. 2006 Dec 1;22(23):2968-70.
:: DESCRIPTION
SequenceViewer (Sequence Viewer for Students) is an easy-to-use computer program for viewing and compare DNA sequences. The program is intended for introductory biology students with no previous genetics training.
::DEVELOPER
:: SCREENSHOTS
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Kalinowski ST, MJ Leonard, TM Andrews (2010)
Sequence Viewer for Students: An easy to use computer program for viewing and comparing DNA students.
Genetics
:: DESCRIPTION
Flicker is an open source Java application for comparing 2D gel (or similar) images across the Internet or locally. It is possible to visually compare a user gel image with a SWISS-2DPAGE image and then select spots for identification with the Expasy SWISS-PROT protein ID database. It also has rudimentary manual quantification of spot data.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Comparing 2-D Electrophoretic Gels Across Internet Databases,
PF Lemkin, GC Thornwall, J Evans (2005)
“The Proteomics Handbook”, JM Walker (Ed), Humana Press Inc, Totowa, NJ, pp 279-305.
:: DESCRIPTION
UpdownDistance is a tool for evaluating closeness of tree matches when comparing a query tree P with a data tree D where both P and D are phylogenetic trees. The method computes the Updown distance between P and D
::DEVELOPER
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Jason T. L. Wang, Huiyuan Shan, Dennis Shasha and William H. Piel,
“Fast Structural Search in Phylogenetic Databases,”
Evolutionary Bioinformatics Online, Volume 1, 2005, pp. 37-46.
:: DESCRIPTION
Galinter (Graph-based alignment of protein-protein interfaces) is a program for aligning non-covalent interactions at protein-protein interfaces. The method matches non-covalent interactions between different interfaces. The vector representations of van der Waals interactions and hydrogen bonds are aligned based on their geometry.
::DEVELOPER
Hongbo Zhu, Max-Planck-Institut Informatik
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Zhu H, Sommer I, Lengauer T, Domingues FS.
Alignment of Non-Covalent Interactions at Protein-Protein Interfaces.
PLoS ONE. 2008; 3(4): e1926.
