Tygrys.com - katalog stron : Science : Biology : Bioinformatics : Software

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Znaleziono 67 stron w kategorii Software:

Tytuł strony: ADF MAGE-ML
Opis strony: Open source Java software for checking and conversion of MicroArray Array Design data file (ADF -Array Design File- MAGE-ML).
Adres: http://adfconverter.sourceforge.net/

Tytuł strony: AlmaKnowledgeServer
Opis strony: Text mining tool for genomics, proteomics platforms and drug discovery.
Adres: http://www.timelogic.com/aks/index.html

Tytuł strony: AnnHyb
Opis strony: 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.
Adres: http://bioinformatics.org/annhyb/

Tytuł strony: APBioKnoppix
Opis strony: Knoppix based bioinformatics software tools. Bootable from CD.
Adres: http://opensource.nus.edu.sg/wiki/index.php/APBioKnoppix

Tytuł strony: The ARB Project
Opis strony: 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.
Adres: http://www.arb-home.de

Tytuł strony: ARCiB -- Accessible Retired Computers in Biology
Opis strony: 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.
Adres: http://arcib.dowling.edu/

Tytuł strony: Biochemfusion: Enabling Biochemformatics
Opis strony: Software for working with post-translationally or chemically modified peptides and proteins including proteins as both sequences and chemical structures.
Adres: http://www.biochemfusion.com

Tytuł strony: BioEdit
Opis strony: Free Windows biological sequence alignment editor.
Adres: http://www.mbio.ncsu.edu/BioEdit/bioedit.html

Tytuł strony: Bioinformatics Software Tools
Opis strony: 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.
Adres: http://www.bio32.com

Tytuł strony: Bioinformatics Tools in Haskell
Opis strony: A bioinformatics library implemented in Haskell, including various utilities based on it.
Adres: http://malde.org/~ketil/

Tytuł strony: Biological Concept Diagram Editor
Opis strony: A tool designed for efficient knowledge and data capture from electronic resources for sharing, mining and presentation purposes.
Adres: http://arrayanalysis.mbni.med.umich.edu/draw/

Tytuł strony: BioMAJ
Opis strony: Workflow engine dedicated to bio-data synchronization and processing.
Adres: http://biomaj.genouest.org

Tytuł strony: Biomax BioXM Knowledge Management Environment
Opis strony: 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.
Adres: http://www.biomax.com/products/bioxm.php

Tytuł strony: biOpen
Opis strony: Commercial Mac OS X sequence analysis and structure visualization software. [PDF]
Adres: http://www.lightwave-scientific.com/Resources/biOpen.pdf

Tytuł strony: CentiBiN: Centralities in Biological Networks
Opis strony: Application for the calculation and visualization of centralities for biological networks.
Adres: http://centibin.ipk-gatersleben.de/

Tytuł strony: Darwin
Opis strony: An interactive tool for peptide and nucleotide sequence analysis.
Adres: http://cbrg.inf.ethz.ch/Darwin/index.html

Tytuł strony: DNA Counter
Opis strony: Small free Windows program to calculate nucleotides frequencies in DNA sequences.
Adres: http://www.dnabaser.com/download/DNA-Counter/index.html

Tytuł strony: DNAMAN
Opis strony: Commercial software for DNA and Protein sequence analysis and manipulation. Available for Windows and Mac OS X.
Adres: http://www.lynnon.com

Tytuł strony: DNPTrapper
Opis strony: A Linux assembly editing and visualization tool specifically designed for manual analysis and finishing of repeated regions.
Adres: http://dnptrapper.sourceforge.net/

Tytuł strony: Expression Profiler
Opis strony: 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.
Adres: http://www.ebi.ac.uk/expressionprofiler/

Tytuł strony: FASTA
Opis strony: William Pearson's package for fast sequence comparison tools.
Adres: http://www.ebi.ac.uk/Tools/fasta/

Tytuł strony: FASTA Converter
Opis strony: Free Windows tool for merging multiple FASTA files into a single FASTA file.
Adres: http://www.dnabaser.com/download/FASTA-Converter/index.html

Tytuł strony: Friend
Opis strony: An integrated multiple structure visualization and multiple sequence alignment application. Available for Windows, Linux.
Adres: http://mozart.bio.neu.edu/friend/friend.html

Tytuł strony: GDE
Opis strony: An integrated linux environment for bioinformatics and evolutionary analysis based on the Genetic Data Environment (GDE). Contains binaries for Linux and Mac OS X, documentation, screenshots, references, and organism specific interfaces.
Adres: http://www.bioafrica.net/GDElinux/index.html

Tytuł strony: Geneious
Opis strony: 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.
Adres: http://www.geneious.com

Tytuł strony: GeneRunner
Opis strony: A fairly old Windows sequence analysis tool for everyday lab use. Formerly a commercial product.
Adres: http://www.generunner.net

Tytuł strony: Genespotter
Opis strony: Commercial Windows software for analyzing biochip image data.
Adres: http://www.genespotter.de

Tytuł strony: Genome-tools Web Interface
Opis strony: Genome-tools provides flexible tools and a simple API for genomic sequence processing on genomes published in the standard Genbank format.
Adres: http://sourceforge.net/projects/genome-tools/

Tytuł strony: Gints
Opis strony: Object-oriented regulation network simulator written in Java. Includes downloadable software and documentation. The site is in French and English.
Adres: http://gints.free.fr/english/eng_whatsAbout.htm

Tytuł strony: GoCore
Opis strony: GoCore is a free Excel based tool for protein sequence alignment, comparisons and functional predictions in a simple, visually appealing, manner.
Adres: http://www.helsinki.fi/project/ritvos/GoCore/

Tytuł strony: gsuffix
Opis strony: 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.
Adres: http://compbio.charite.de/index.php/gsuffix.html

Tytuł strony: HMMER
Opis strony: 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.
Adres: http://hmmer.janelia.org/

Tytuł strony: INCA - INteractive Codon Analysis
Opis strony: 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.
Adres: http://www.bioinfo-hr.org/inca

Tytuł strony: JAligner
Opis strony: Java implementation of the dynamic programming algorithm Smith-Waterman for biological local pairwise sequence alignment.
Adres: http://jaligner.sourceforge.net/

Tytuł strony: JSTRING
Opis strony: Java program for searching Tandem Repeats (TR) in a DNA sequence. It shows the results also in a graphical format.
Adres: http://bioinf.dms.med.uniroma1.it/JSTRING/

Tytuł strony: KoriBlast
Opis strony: Commercial graphical software for Blast searches.
Adres: http://www.korilog.com/products/improving-NCBI-BLAST.php

Tytuł strony: limmaGUI
Opis strony: A graphical user interface for linear modelling of cDNA and oligonucleotide microarray data to identify differentially expressed genes.
Adres: http://bioinf.wehi.edu.au/limmaGUI/index.html

Tytuł strony: MAFFT
Opis strony: Multiple sequence alignment program for linux and other unix-like operating systems. Offers a range of multiple alignment strategies.
Adres: http://align.bmr.kyushu-u.ac.jp/mafft/online/server/

Tytuł strony: MaGe (Magnifying Genomes) - Microbial genome Annotation System
Opis strony: The MaGe system offers a set of graphical interfaces which allow biologist to perform relevant expert annotation of microbial genomes.
Adres: http://www.genoscope.cns.fr/agc/mage/

Tytuł strony: MARBL
Opis strony: MARBL is a free (GPL) system to index the text portions of GenBank and associated NLM abstracts. Based on Mumps and the MDH.
Adres: http://www.cs.uni.edu/~okane/source/MARBL/proc1.html

Tytuł strony: Mauve
Opis strony: Free software for constructing global alignments of multiple rearranged genomes. The visualization environment displays sequence similarity profiles and annotated sequence features.
Adres: http://gel.ahabs.wisc.edu/mauve/

Tytuł strony: MedScan
Opis strony: Commercial Windows natural language processing software for the automated extraction of biological data from scientific literature.
Adres: http://www.ariadnegenomics.com/products/medscan.html

Tytuł strony: MELTING
Opis strony: Computes, for a nucleic acid duplex, the enthalpy, the entropy and the melting temperature of the helix-coil transitions.
Adres: http://www.ebi.ac.uk/~lenov/meltinghome.html

Tytuł strony: Meta-MEME
Opis strony: Software toolkit for building and using motif-based hidden Markov models of DNA and proteins - from the Univ. of California-San Diego.
Adres: http://metameme.sdsc.edu/

Tytuł strony: MIRA
Opis strony: A sequence assembly suite with SNP detection for "hard" projects.
Adres: http://chevreux.org/projects_mira.html

Tytuł strony: msa.cgb.ki.se
Opis strony: Open source software developed by Timo Lassmann for multiple sequence alignment, including Kalign, Kalignvu and Mumsa.
Adres: http://msa.cgb.ki.se/cgi-bin/msa.cgi

Tytuł strony: Nano+Bio-Centre
Opis strony: Offers a range of free software tools for annotating an entire genome, assembling sequences, gap closing and analysis of microarrays.
Adres: http://nbc3.biologie.uni-kl.de

Tytuł strony: NCBI BLAST
Opis strony: 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.
Adres: http://www.ncbi.nlm.nih.gov/BLAST/

Tytuł strony: NEXML: Phylogenetic Data in xml
Opis strony: Exchange standard for representing phylogenetic data, inspired by the commonly used NEXUS format but more robust and easier to process.
Adres: http://www.nexml.org

Tytuł strony: pDRAW32
Opis strony: Freeware DNA cloning, analysis and visualization software.
Adres: http://www.acaclone.com

Tytuł strony: Phrap/Consed
Opis strony: DNA sequence assembler and finishing tools from the UW Genome Center.
Adres: http://www.phrap.org/

Tytuł strony: PHRED
Opis strony: A widely-used program for base calling DNA sequencing trace files. Source code available and free for non-commecial users.
Adres: http://www.genome.washington.edu/UWGC/analysistools/Phred.cfm

Tytuł strony: PhyloSort
Opis strony: 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.
Adres: http://phylosort.sourceforge.net/

Tytuł strony: Premier Biosoft International
Opis strony: 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.
Adres: http://www.premierbiosoft.com/

Tytuł strony: RGBG Analyzer
Opis strony: 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.
Adres: http://www.immunokin.com

Tytuł strony: Seqtools
Opis strony: Commercial Windows software for batch handling and analysis of nucleotide and protein sequences.
Adres: http://www.seqtools.dk

Tytuł strony: Sequence Analysis
Opis strony: A freeware Java application that does many standard types of DNA and protein sequence analysis tasks.
Adres: http://www.informagen.com/SA/

Tytuł strony: SeWeR
Opis strony: An integrated portal for common web-based bioinformatics services. Built in Javascript as a standalone browser application.
Adres: http://bioinformatics.org/sewer/

Tytuł strony: Sfold
Opis strony: 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.
Adres: http://sfold.wadsworth.org/index.pl

Tytuł strony: Sockeye
Opis strony: 3D visualisation platform for Comparative Genomics visualisation.
Adres: http://www.bcgsc.ca/gc/bomge/sockeye/

Tytuł strony: STRAP
Opis strony: Software supports the analysis of hundreds of proteins and integrates aa sequence, secondary structure, 3D-structure and genomic- and mRNA-sequence, and residue annotation.
Adres: http://www.charite.de/bioinf/strap

Tytuł strony: STRING
Opis strony: Search for Tandem Repeats IN Genomes. Includes C source code and examples.
Adres: http://www.caspur.it/~castri/STRING/index.htm

Tytuł strony: sys-bio.org
Opis strony: Software for simulating metabolic, signal and genetic networks. Home of SBW, Jarnac, JDesigner and winSCAMP.
Adres: http://sbw.kgi.edu/

Tytuł strony: Tandem Repeats Finder
Opis strony: Locates and displays tandem repeats in DNA sequences.
Adres: http://tandem.bu.edu/trf/trf.html

Tytuł strony: Unipro UGENE: Integrated Bioinformatics Tools
Opis strony: Free cross-platform bioinformatics software package for DNA and protein sequence analysis.
Adres: http://ugene.unipro.ru

Tytuł strony: WU-BLAST
Opis strony: The Washington University improved version of BLAST. Free for academic users.
Adres: http://blast.wustl.edu/

Tytuł strony: XDigitize
Opis strony: A Linux/Unix visualization software system for evaluation of hybridisation experiments.
Adres: http://www.molgen.mpg.de/~xdigitise/

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