Directory: Top/Science/Biology/Bioinformatics/Software

Top / Science / Biology / Bioinformatics / Software /

Sequence Analysis
A freeware Java application that does many standard types of DNA and protein sequence analysis tasks.
http://www.informagen.com/SA/
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The ARB Project
A free sequence database application for Unix. It includes a sequence editor, several sequence aligners, phylogeny reconstruction tools, probe/primer search and generation, genome annotation and visualization. In addition to the integrated user-interface
http://www.arb-home.de
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Sfold
Predicts probable RNA secondary structures, assesses target accessibility, and provides tools for the rational design of RNA-targeting nucleic acids. The web server version is free for academic use.
http://sfold.wadsworth.org/index.pl
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AnnHyb
Free software for working with and managing nucleotide sequences in multiple formats. Features include sequence annotation, restriction analysis, pattern searching, retrieval from servers. Released under GNU Public Licence.
http://bioinformatics.org/annhyb/
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ARCiB -- Accessible Retired Computers in Biology
NSF supported project to make old computers accessible to new software in bioinformatics. Provides transitional and supplemental support, especially in structural biology, for software packages on various platforms.
http://arcib.dowling.edu/
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limmaGUI
A graphical user interface for linear modelling of cDNA and oligonucleotide microarray data to identify differentially expressed genes.
http://bioinf.wehi.edu.au/limmaGUI/index.html
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JAligner
Java implementation of the dynamic programming algorithm Smith-Waterman for biological local pairwise sequence alignment.
http://jaligner.sourceforge.net/
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EMBOSS
The European Molecular Biology Open Software Suite. An open source project started by the EMBnet community in order to replace proprietary systems like GCG.
http://emboss.sourceforge.net/
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MaGe (Magnifying Genomes) - Microbial genome Annotation System
The MaGe system offers a set of graphical interfaces which allow biologist to perform relevant expert annotation of microbial genomes.
http://www.genoscope.cns.fr/agc/mage/
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STRAP
Software supports the analysis of hundreds of proteins and integrates aa sequence, secondary structure, 3D-structure and genomic- and mRNA-sequence, and residue annotation.
http://www.charite.de/bioinf/strap
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