Biochemistry and Molecular Biology 16
Bioinformatics 101
Bioinformatics Online 174
Evolution 11
Gene Expression 26
Phylogeny 39
Quantitative Genetics 30
| | Genetic Programming - Artificial Intelligence, Computers 63
Bioinformatics - Biology, Science 575
Software - Biology, Science 27
Software - Science 171
 Alice SoftwareAlice Software
 Database system to build and publish synonymised checklists of species. Species descriptions include pre-established fields and detailed descriptions employing any number of user-defined fields.
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Alternative Splice Site PredictorAlternative Splice Site Predictor
 ASSP predicts putative alternative exon isoform, cryptic, and constitutive splice sites of internal (coding) exons.
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Binary State Pattern ClusteringBinary State Pattern Clustering
 BSPC is a method for pattern discovery in gene expression microarray data, that makes use of a perspective that interprets gene activity as being in two or more discrete functional states.
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The Bio LogThe Bio Log
 DNA Baser sequence aligner is a software package providing automatic DNA sequence assembly functions, contig editing functions and chromatogram viewing and editing.
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BioConstructor Molecular Cloning SoftwareBioConstructor Molecular Cloning Software
 BioConstructor is a bioinformatics solution focussing on molecular cloning. Runs on Windows, Mac OS X, Linux.
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Broad Institute Genetics SoftwareBroad Institute Genetics Software
 Offers a wide range of software for genome sequence analysis, genetic variation, linkage analysis, expression analysis, and PCR primer selection.
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CounterTrace II DNA SequencingCounterTrace II DNA Sequencing
 Software and reagent for improving the quality and read length of DNA sequence traces collected on the ABI 3730 DNA sequencer.
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CREME: Cis-REgulatory Module ExplorerCREME: Cis-REgulatory Module Explorer
 Identifies modules of putative transcription factor binding sites that are specific to promoters of co-expressed human genes. Provides a resource for decoding microarray experiments.
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DNA Chromatogram ExplorerDNA Chromatogram Explorer
 Freeware program that can automatically view, trim and convert all chromatogram files (SCF, ABI, AB1, AB) in the current folder.
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Free FASTA/MultiFASTA converter toolFree FASTA/MultiFASTA converter tool
 This tool will look for all FASTA files in the specified folder and will merge their content in a single file, generating a standard or custom MultiFASTA file. Just download the program and double click to run it. It does not need additional software/add-ons/Java or VBRun packages to run.
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Gene Array Analyzer SoftwareGene Array Analyzer Software
 Software for the efficient management, analysis and visualization of large amounts of gene expression data.
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Gene Expression Open Source SystemGene Expression Open Source System
 Open source database and analysis package used to store and analyze gene expression data. Includes microarray center workflow management, and researcher tools to analyze final data.
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GeneSifterGeneSifter
 Web-based microarray analysis system that combines data management and analytical functions with integrated, current gene annotation from public databases. Product overview in pdf format.
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Genetic Linkage AnalysisGenetic Linkage Analysis
 Offers links and other resources for genetic analysis software from the Rockefeller University.
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Genetic Network Maps as Java AppletsGenetic Network Maps as Java Applets
 Genetic networks controlling development in Sea Urchin represented as Java applets. Formal scheme. Molecular interactions modelled as Petri Net.
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Genex Open Source Gene Expression DatabaseGenex Open Source Gene Expression Database
 Genex is an open source database for storing, processing, and analyzing gene expression microarray data.It is intended for local installation by medium sized laboratories with some system administration support. No activity since 2003.
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GENtleGENtle
 GPL software for viewing and editing DNA and amino acid sequences. Integrated alignment, PCR, BLAST searches, and shared databases. Windows version is available for download (English and German).
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Hands on GeneticsHands on Genetics
 Instructional software for basic genetics, such as DNA, PCR, Mendel, Hardy-Weinberg, meiosis and computer simulations. Freeware for Mac and Windows.
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HyPhy: Hypothesis Testing Using PhylogeniesHyPhy: Hypothesis Testing Using Phylogenies
 Free multiplatform software package intended to perform maximum likelihood analyses of genetic sequence data.
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MapMakerDrawerMapMakerDrawer
 Program that draws chromosome maps (as EMF files) using the output of MapMaker EXP. Delphi source code is freely available upon request. The software is available under the MIT licence.
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MuStaR Sequence Variant Database SoftwareMuStaR Sequence Variant Database Software
 Designed to create a database of mutation loci, to make this information available to as many people as possible. No longer being maintained.
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Mutation ExplorerMutation Explorer
 Software to automatically detect mutations from DNA sequence data, including homozygous, heterozygous, insertion and deletion.
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OpenBiomindOpenBiomind
 OpenBiomind is an open source toolkit for analysis of gene expression, SNP and other biological datasets using advanced machine learning and pattern mining techniques, and includes traditional clustering, hybrid clustering, and other techniques.
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PeakTrace BasecallerPeakTrace Basecaller
 Software for base and quality scoring ABI DNA sequencing traces. Works with all ABI DNA sequencers including the ABI 377, ABI 310, ABI 3700, ABI 3100, ABI 3130 and ABI 3730.
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PegasysPegasys
 Open source software for executing and integrating analyses of biological sequences. Includes documentation and installation instructions.
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PhenosystemsPhenosystems
 Software company developing user friendly tools for the molecular genetics community. Provides details of products, R and D collaborations and news.
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Progeny SoftwareProgeny Software
 Supply pedigree drawing and genetic data management software for genetic research with a built-in customizable relational database.
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PyMoodsPyMoods
 A software application for visualizing genomic data. Can be used to analyze and display relations between complete genomes, genomic fragments, proteins, ESTs, full length cDNAs, and gene expression data.
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RNA Baser Sequence Assembly SoftwareRNA Baser Sequence Assembly Software
 Software tool specialized in processing rRNA sequences and optimized for early integration of sequence and metadata. The metadata will stay attached to the primary sequence information throughout the complete workflow of sequence analysis, until final submission.
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SeqoolSeqool
 Free Windows software tool for the analysis of DNA and RNA sequences. It includes several sequence statistics and a comprehensive set of signal search methods.
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The Sequence Manipulation SuiteThe Sequence Manipulation Suite
 The Sequence Manipulation Suite is a collection of JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. It is commonly used by molecular biologists, for teaching purposes, and for program and algorithm testing.
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STRandSTRand
 Open-source program, provided by Davis' Veterinary Genetics Lab at the University of California, to automate or speed up the analysis of DNA fragment length polymorphism samples.
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SynopsisSynopsis
 Commercial Windows software for visualization and annotation of genomic data.
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