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| x name | x image | x Software Genre | x License | x Developer | x article |
|---|---|---|---|---|---|
| x EMBOSS |
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Bioinformatics | GNU Lesser General Public License | European Bioinformatics Institute |
EMBOSS is "The European Molecular Biology Open Software
Suite". EMBOSS is a free Open Source software analysis
package specially developed for the needs of the molecular
biology (e.g. EMBnet) user community. The...
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| GNU General Public License | |||||
| x Glimmer | Bioinformatics | Artistic License | Steven Salzberg |
GLIMMER (Gene Locator and Interpolated Markov ModelER) was the first bioinformatics system for finding genes that used the interpolated Markov model formalism. It is very effective at finding genes in bacteria, archaea, and viruses, typically...
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| x GlimmerHMM | Bioinformatics | Artistic License | Steven Salzberg |
GlimmerHMM is a eukaryotic gene finder based on a Generalized Hidden
Markov Model (GHMM). Although the gene finder conforms to the overall
mathematical framework of a GHMM, additionally it incorporates splice
site models adapted from the GeneSplicer...
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| x GlimmerM | Bioinformatics | Artistic License |
A gene finder derived from Glimmer, but developed specifically for eukaryotes.
It is based on a dynamic programing algorithm that considers all combinations of possible exons
for inclusion in a gene model and chooses the best of these combinations...
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| x GeneSplicer | Bioinformatics | Artistic License |
A fast, flexible system for detecting
splice sites in the genomic DNA of various eukaryotes. The system has
been trained and tested successfully on Plasmodium falciparum
(malaria), Arabidopsis thaliana, human, Drosophila, and
rice . Training data...
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| x Panther | Bioinformatics | Brian Karlak |
Panther is a bioinformatics application used for creating ontologies based upon protein structure and function and classifying genes into these ontologies using machine learning techniques, such as Hidden Markov Models.
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| x Geneworld | Bioinformatics | Brian Karlak | |||
| x Bioclipse | Bioinformatics | Eclipse Public License |
The Bioclipse project is a Java-based, open source, visual platform for chemo- and bioinformatics based on the Eclipse Rich Client Platform (RCP).
Bioclipse uses, as any RCP application, a plugin architecture that inherits basic functionality and...
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| x Sequerome |
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Bioinformatics |
Sequerome is a web-based Sequence profiling tool that provides the unique and useful functionality of seamlessly integrating an entire BLAST report to a panel of servers that perform advanced sequence manipulations in a tabbed browsing environment....
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| x SplitsTree | Bioinformatics |
SplitsTree is a popular program for inferring phylogenetic trees or, more generally, phylogenetic networks from various types of data such as a sequence alignment, a distance matrix or a set of trees . According to its developers, SplitsTree uses...
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| x MAGMA |
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Bioinformatics | GNU Lesser General Public License |
MAGMA (Molecular Animation, Graphics and Modeling Application framework) is a rapid application development (RAD) system in the field of molecular modelling, computational chemistry and computational biology. It is an extension dynamic-link library ...
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| x Geneious |
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Bioinformatics |
Geneious is a commercial, cross-platform bioinformatics application.
Geneious comes in a Basic version that is free for academic use, and a commercial Pro version with added features. Geneious bundles various bioinformatics tools under one hood with...
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| x Comparative Toxicogenomics Database | Bioinformatics |
The Comparative Toxicogenomics Database (CTD) is a public website and research tool that curates scientific data describing relationships between chemicals, genes, and human diseases.
The database is maintained by the Department of Bioinformatics at...
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| Data analysis | |||||
| x Primer Premier | Bioinformatics |
Primer Premier software combines design of primers for various PCR applications under one common platform. The software supports design of degenerate primers on alignments for amplifying related set of nucleotide sequences for detecting common...
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