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| Giga Bits (more) | 30 | 1996 | FASTA |
| Bioinformatics Software | Sequence Analysis | 8 | sequence alignment |
| 7Á | ZÄ5 | sequences | genomes |
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NCBI BLAST BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs designed to explore all of the available sequence databases regardless of whether the query is protein or DNA. Search in Category: Science: Biology: Bioinformatics: Online Services: Homology Detection Search in Category: Science: Biology: Bioinformatics: Directories Search in Category: Science: Biology: Genetics Search in Category: Science: Technology: Biomedical Engineering www.ncbi.nlm.nih.gov/BLAST |
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Biochemfusion: Enabling Biochemformatics Software for working with post-translationally or chemically modified peptides and proteins including proteins as both sequences and chemical structures. www.biochemfusion.com - cached |
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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. emboss.sourceforge.net - cached |
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Geneious This research software is designed for biologists and not computer scientists. It combines all the major DNA and protein sequence analysis tools into one software solution. www.geneious.com - modified: 9 months ago - cached |
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HMMER Profiles protein sequence data using hidden Markov models of a statistical descriptions of a sequence family's consensus. HMMER is a freely distributable implementation of profile HMM software for protein sequence analysis. Search in Category: Computers: Artificial Intelligence: Machine Learning: Software hmmer.janelia.org - cached |
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Meta-MEME Software toolkit for building and using motif-based hidden Markov models of DNA and proteins - from the Univ. of California-San Diego. Search in Category: Computers: Artificial Intelligence: Machine Learning: Software Search in Category: Science: Biology: Bioinformatics: Online Services: Homology Detection metameme.sdsc.edu - cached |
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NEXML: Phylogenetic Data in xml Exchange standard for representing phylogenetic data, inspired by the commonly used NEXUS format but more robust and easier to process. www.nexml.org - published: Dec 16 2008 - cached |
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Phrap/Consed DNA sequence assembler and finishing tools from the UW Genome Center. www.phrap.org - cached |
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Premier Biosoft International Developers of software for real time PCR primer design, TaqMan, molecular beacons, SYBR green, FRET, DNA microarray analysis, restriction cloning, plasmid maps, gateway cloning, protein interaction network and functional genomics. Search in Category: Science: Biology: Biochemistry and Molecular Biology: Gene Expression: Software www.premierbiosoft.com - cached |
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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 the ARB database can be accessed using Perl or C. www.arb-home.de - modified: 0 months ago - cached |
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WU-BLAST The Washington University improved version of BLAST. Free for academic users. Search in Category: Science: Biology: Bioinformatics: Online Services: Homology Detection blast.wustl.edu - cached |
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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. Search in Category: Science: Biology: Bioinformatics www.bioinformatics.org/annhyb - cached | |
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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 structual biology, for software packages on various platforms. arcib.dowling.edu - published: Apr 07 2002 - cached | |
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BioEdit Free Windows biological sequence alignment editor. www.mbio.ncsu.edu/BioEdit/bioedit.html - published: May 31 2005 - cached | |
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BioMAJ Workflow engine dedicated to bio-data synchronization and processing. biomaj.genouest.org - cached | |
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Biomax BioXM Knowledge Management Environment Project-centered, distributed software platform that provides a central inventory of information and knowledge. Users create, manage and visualize scientific models as an extendible network of interrelated concepts. Search in Category: Science: Biology: Bioinformatics: Companies www.biomax.com/products/bioxm.php - published: Sep 17 2008 - cached | |
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CentiBiN: Centralities in Biological Networks Application for the calculation and visualization of centralities for biological networks. centibin.ipk-gatersleben.de - cached | |
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Expression Profiler An open, extensible web-based collaborative platform for microarray gene expression, sequence and PPI data analysis, exposing distinct chainable components for clustering, pattern discovery, statistics, machine-learning algorithms and visualization. Search in Category: Science: Biology: Bioinformatics: Directories Search in Category: Science: Biology: Microbiology: Parasitology www.ebi.ac.uk/expressionprofiler - published: Nov 03 2003 - cached | |
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FASTA William Pearson's package for fast sequence comparison tools. Search in Category: Science: Biology: Bioinformatics: Directories Search in Category: Science: Biology: Microbiology: Parasitology www.ebi.ac.uk/Tools/fasta - cached | |
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Genespotter Commercial Windows software for analyzing biochip image data. www.genespotter.de - published: Jul 10 2007 - cached | |
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Genome-tools Web Interface Genome-tools provides flexible tools and a simple API for genomic sequence processing on genomes published in the standard Genbank format. Search in Category: Computers: Open Source: Project Hosting Search in Category: Computers: Open Source: Software Search in Category: Computers: Systems: Apple: Macintosh: Development: Sources www.sourceforge.net/projects/genome-tools - published: May 04 2008 - cached | |
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GoCore GoCore is a free Excel based tool for protein sequence alignment, comparisons and functional predictions in a simple, visually appealing, manner. www.helsinki.fi/project/ritvos/GoCore - cached | |
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gsuffix C-language implementations of generalized suffix-based algorithms useful for searching for string patterns in sets of input strings and is released under the terms of the LGPL license. Search in Category: Science: Biology: Bioinformatics: Research Groups compbio.charite.de/index.php/gsuffix.html - cached | |
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JAligner Java implementation of the dynamic programming algorithm Smith-Waterman for biological local pairwise sequence alignment. Search in Category: Science: Biology: Bioinformatics: Online Services: Protein Analysis jaligner.sourceforge.net - cached | |
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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. www.genoscope.cns.fr/agc/mage - cached | |
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msa.cgb.ki.se Open source software developed by Timo Lassmann for multiple sequence alignment, including Kalign, Kalignvu and Mumsa. msa.cgb.ki.se/cgi-bin/msa.cgi - cached | |
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Nano+Bio-Centre Offers a range of free software tools for annotating an entire genome, assembling sequences, gap closing and analysis of microarrays. nbc3.biologie.uni-kl.de - cached | |
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pDRAW32 Freeware DNA cloning, analysis and visualization software. www.acaclone.com - cached | |
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PHRED A widely-used program for base calling DNA sequencing trace files. Source code available and free for non-commecial users. www.genome.washington.edu/UWGC/analysistools/Phred.cfm | |
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Seqtools Commercial Windows software for batch handling and analysis of nucleotide and protein sequences. www.seqtools.dk - cached | |
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SeWeR An integrated portal for common web-based bioinformatics services. Built in Javascript as a standalone browser application. Search in Category: Science: Biology: Bioinformatics www.bioinformatics.org/sewer - cached | |
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Sockeye 3D visualisation platform for Comparative Genomics visualisation. www.bcgsc.ca/gc/bomge/sockeye - published: Feb 06 2007 - cached | |
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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. Search in Category: Reference: Education: Colleges and Universities: Europe: Germany: Berlin: Humboldt-University of Berlin www.charite.de/bioinf/strap - cached | |
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sys-bio.org Software for simulating metabolic, signal and genetic networks. Home of SBW, Jarnac, JDesigner and winSCAMP. sbw.kgi.edu - published: Oct 25 2007 - cached | |
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Tandem Repeats Finder Locates and displays tandem repeats in DNA sequences. Search in Category: Science: Biology: Bioinformatics: Research Groups tandem.bu.edu/trf/trf.html - cached | |
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Darwin Darwin is free and available for a broad variety of operating systems and can be downloaded at this place.. On the Darwin Help Webpage you find all Darwin functions with explanation and examples.. In an effort to connect Darwin users together, we ... cbrg.inf.ethz.ch/Darwin - published: Aug 02 2007 - cached | |
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Unipro UGENE: Integrated Bioinformatics Tools Free cross-platform bioinformatics software package for DNA and protein sequence analysis. ugene.unipro.ru - cached | |
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limmaGUI Eventually RAqua and TkAqua will be the best solution, but for now, it is best to run R and Tcl/Tk in X11. Install R from http://cran.r-project.org, X11 from here and Tcl/Tk from http://www.tcl.tk/, following the instructions in the R for MacOS X FAQ. After installing Tcl/Tk for X11 on MacOS X you need to install the Tktable extension. It is available in binary form. (do not use the version from TclTkAquaBI, because that is an Aqua version, which is not compatible with X11). Here is a ... bioinf.wehi.edu.au/limmaGUI - cached | |
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ADF MAGE-ML Open source Java software for checking and conversion of MicroArray Array Design data file (ADF -Array Design File- MAGE-ML). adfconverter.sourceforge.net - cached | |
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Bioinformatics Software Tools Provides access to a number of tools including biological databases, sequence allignment, analysis and manipulation tools and structural analysis tools. Also provides a glossary of bioinformatics terms. www.bio32.com - cached | |
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Bioinformatics Tools in Haskell A bioinformatics library implemented in Haskell, including various utilities based on it. www.malde.org/~ketil - cached | |
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Biological Concept Diagram Editor A tool designed for efficient knowledge and data capture from electronic resources for sharing, mining and presentation purposes. arrayanalysis.mbni.med.umich.edu/draw - cached | |
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biOpen Commercial Mac OS X sequence analysis and structure visualization software. www.lightwave-scientific.com/Resources/biOpen.pdf | |
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DNAMAN Commercial software for DNA and Protein sequence analysis and manipulation. Available for Windows and Mac OS X. www.lynnon.com - cached | |
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DNPTrapper A Linux assembly editing and visualization tool specifically designed for manual analysis and finishing of repeated regions. dnptrapper.sourceforge.net - published: Oct 29 2007 - cached | |
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GeneRunner A fairly old Windows sequence analysis tool for everyday lab use. Formerly a commercial product. www.generunner.net - cached | |
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Gints Object-oriented regulation network simulator written in Java. Includes downloadable software and documentation. The site is in French and English. gints.free.fr/english/eng_whatsAbout.htm - cached | |
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MARBL MARBL is a free (GPL) system to index the text portions of GenBank and associated NLM abstracts. Based on Mumps and the MDH. www.cs.uni.edu/~okane/source/MARBL/proc1.html - published: Nov 30 2004 - cached | |
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MedScan Commercial Windows natural language processing software for the automated extraction of biological data from scientific literature. Search in Category: Regional: North America: United States: Maryland: Localities: R: Rockville: Business and Economy: Computers and Internet Search in Category: Science: Biology: Bioinformatics: Companies www.ariadnegenomics.com/products/medscan.html - cached | |
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MELTING Computes, for a nucleic acid duplex, the enthalpy, the entropy and the melting temperature of the helix-coil transitions. Search in Category: Science: Biology: Bioinformatics: Directories Search in Category: Science: Biology: Microbiology: Parasitology www.ebi.ac.uk/~lenov/meltinghome.html | |
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MIRA A sequence assembly suite with SNP detection for "hard" projects. www.chevreux.org/projects_mira.html - cached | |
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RGBG Analyzer Commercial software to analyses the red, green, blue, and gray color values of user-selected areas of images in gif, tiff, bmp, jpeg format. Windows 2000 and XP. www.immunokin.com - cached | |
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BioAfrica - genetic data environment (GDE) for Linux An integrated linux environment for bioinformatics and evolutionary analysis based on the Genetic Data Environment (GDE). ... www.bioafrica.net/GDElinux - cached | |
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Friend An integrated multiple structure visualization and multiple sequence alignment application. Available for Windows, Linux. mozart.bio.neu.edu/friend/friend.html | |
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PhyloSort A Java tool to sort phylogenetic trees by searching for user-specified subtrees that contain a monophyletic group of interest defined by operational taxonomic units. phylosort.sourceforge.net - cached | |
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Sequence Analysis A freeware Java application that does many standard types of DNA and protein sequence analysis tasks. Search in Category: Science: Biology: Bioinformatics: Companies www.informagen.com/SA - published: Jan 17 2006 - cached | |
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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. sfold.wadsworth.org - cached | |
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XDigitize A Linux/Unix visualization software system for evaluation of hybridisation experiments. Search in Category: Regional: Europe: Germany: States: Berlin: Science and Environment www.molgen.mpg.de/~xdigitise - cached | |
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DNA Counter ab ab1 abi academic align assembler assembly Base code consensus contig conversion convert convertor detection discount DNA download edit editing editor expensive free gap gel inexpensive insertions mac mutation os x price primer quality research scf seq seqence Sequencing trace trace assembly traces vector ztr ... Search in Category: Science: Biology: Biochemistry and Molecular Biology: Biomolecules: Nucleic Acids: DNA: Software Search in Category: Science: Biology: Bioinformatics: Companies www.dnabaser.com/download/DNA-Counter - cached | |
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APBioKnoppix Knoppix based bioinformatics software tools. Bootable from CD. opensource.nus.edu.sg/wiki/index.php/APBioKnoppix - published: Aug 14 2006 - cached | |
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INCA - INteractive Codon Analysis Windows software that computes and charts codon and amino acid frequencies in whole genomes. Produces fully customizable scatter plots with the possibility to export graphics or text files for further analysis. Free for academic users. Search in Category: Science: Biology: Bioinformatics: Research Groups www.bioinfo-hr.org/inca - cached | |
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AlmaKnowledgeServer (AKS) Databases like MEDLINE® search for documents by index terms, but do not provide structured knowledge, nor allow for conceptual searches of biological objects (e.g. genes or diseases). Public database also do not provide secondary analysis of your search results, which makes it hard to take full advantage of the knowledge they contain.. Click the links to the left to discover the 12 advantages of AKS!. ... Search in Category: Science: Biology: Bioinformatics: Companies www.timelogic.com/aks - cached | |
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KoriBlast Commercial graphical software for Blast searches. www.korilog.com/products/improving-NCBI-BLAST.php - cached | |
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JSTRING Java program for searching Tandem Repeats (TR) in a DNA sequence. It shows the results also in a graphical format. bioinf.dms.med.uniroma1.it/JSTRING - cached | |
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MAFFT Multiple sequence alignment program for linux and other unix-like operating systems. Offers a range of multiple alignment strategies. align.bmr.kyushu-u.ac.jp/mafft/online/server - cached | |
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Mauve Free software for constructing global alignments of multiple rearranged genomes. The visualization environment displays sequence similarity profiles and annotated sequence features. gel.ahabs.wisc.edu/mauve - modified: 0 months ago - cached | |
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Index of /~castri/STRING Apache/2.0.40 Server at www.caspur.it Port ... www.caspur.it/~castri/STRING - published: Feb 27 2003 - cached | |
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UNTITLED Search in Category: Science: Biology: Genetics: Software Search in Category: Science: Biology: Biochemistry and Molecular Biology: Biomolecules: Nucleic Acids: DNA: Software Search in Category: Science: Biology: Bioinformatics: Companies www.dnabaser.com/download/FASTA-Converter | |
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