Software (Genetics)

Software further on these related pages:

Bioinformatics@ DNA Sequence Software@ Evolution Software@ Gene Expression@ General Biology Software@

General Biology Software@ General Scientific Software@ Genetic Programming@ Phylogeny Software@ Quantitative Genetics

Software Sites:

STRand STRand: Open-source program to automate or speed up the analysis of DNA fragment length polymorphism samples run on fluorescence based gels . Instructions for use and program download available . (Software) http://www.vgl.ucdavis.edu/STRand PowerSSR PowerSSR: Set of statistical methods for discrete genetic data analysis, designed especially for microsatellite data analysis. Includes downloadable versions for Windows and Linux. (Software) http://statgen.ncsu.edu/statgen/soft_powerssr.html Hands on Genetics Hands on Genetics: Instructional software for basic genetics, such as DNA, PCR, Mendel, Hardy-Weinberg, meiosis and computer simulations. Download WIN and MAC demos and order online. (Software) http://www.handsongenetics.com DRIFT DRIFT: Graphically represents the effect of genetic drift on gene frequency of one or more populations for a single locus, two allele model in a closed population using stochastic simulation methods. The DOS program is free. (Software) http://nitro.biosci.arizona.edu/zbook/general/gened.html The BioCatalog The BioCatalog: Software directory of general interest in molecular biology and genetics. (Software) http://www.ebi.ac.uk/biocat/ GeneSifter.Net GeneSifter.Net: 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. (Software) http://www.genesifter.net/ GeneX Virginia GeneX Virginia: Open source database and analysis package used to archive and analyze expression data from gene chip experiments. Includes microarray center workflow management, and researcher tools to analyze final data. (Software) https://genes.med.virginia.edu/ MapMakerDrawer MapMakerDrawer: 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. (Software) http://www.emboss.co.nz/products.php?pid=2 MapPop MapPop: Software for selective mapping and bin mapping by Daniel Brown and Todd Vision. WIN version, documentation and references are available here. (Software) http://www.bio.unc.edu/faculty/vision/lab/mappop/ LAMS LAMS: Freeware record keeping system designed for a breeding colony of transgenic mice. Includes program description, system requirements, and installation instructions. (Software) http://www.hgu.mrc.ac.uk/Softdata/Lams/ Genetic Linkage Analysis Genetic Linkage Analysis: Offers links and other resources for genetic analysis software from The Rockefeller University. (Software) http://linkage.rockefeller.edu/ R/qtl: A QTL Mapping Environment R/qtl: A QTL Mapping Environment: Program for mapping quantitative trait loci in experimental crosses. Includes sample graphics and tutorial in pdf format. (Software) http://www.biostat.jhsph.edu/~kbroman/qtl High Performance Computing and Informatics Office High Performance Computing and Informatics Office: US National Institutes of Health site with extensive genetic linkage analysis application resources on high performance computer systems. Formerly the Computational Methods and Algorithms Group. (Software) http://hpcio.cit.nih.gov/ Pegasys Pegasys: Open source software for executing and integrating analyses of biological sequences. Includes documentation and installation instructions. (Software) http://www.bioinformatics.ubc.ca/pegasys/ GeneticStudio GeneticStudio: A complete suite of population genetic analysis programs for MAC. Includes plug-in modules. (Software) http://www.umsl.edu/~biology/Dyer/GeneticStudio/ The Darwin Manual The Darwin Manual: Guide and list of commands used to run this programming language. Library contains programs to compute pairwise alignments, phylogenetic trees, multiple sequence alignments, and to make secondary structure predictions. (Software) http://www.inf.ethz.ch/personal/gonnet/DarwinManual/DarwinManual.html Broad Institute Broad Institute: GeneHunter, MapMaker, Primer, and RHMapper documentation and free software, in UNIX and C source code. (Software) http://www.broad.mit.edu/resources.html Genetic Analysis Software Genetic Analysis Software: Extensive list of linkage, mapping and pedigree software with links for obtaining copies. (Software) http://www.nslij-genetics.org/soft/ Genetic Network Maps as Java Applets Genetic Network Maps as Java Applets: Genetic networks controlling development in Sea Urchin represented as Java applets. Formal scheme. Molecular interactions modelled as Petri Net. (Software) http://www.csa.ru/Inst/gorb_dep/inbios/genet/Urchin/u0maps.htm Istituto di Genetica Biochimica ed Evoluzionistica Istituto di Genetica Biochimica ed Evoluzionistica: Program that performs a permutation-based statistical test to detect genetic divergence among populations from DNA fingerprinting data . Downloadable source Fortran code, executable files and user manual . (Software) http://www.igbe.pv.cnr.it/software.html Alice Software Alice 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. (Software) http://www.alicesoftware.com/ Genetics Software Genetics Software: RASA 2.2 and other Mac software for phylogenetics, comparative genomics, and sequence analysis - from Penn State University. (Software) http://evolution.genetics.washington.edu/phylip/software.pars.html PopGen PopGen: Software that models population genetics with emphasis on genetic drift, selection, and migration. (Software) http://cc.oulu.fi/~jaspi/popgen/popgen.htm Locus Technology, Inc Locus Technology, Inc: Colony management, supports creation and tracking of research animals: transgenic and congenic lines, knockouts and outbred strains. (Software) http://www.locustechnology.com/ Big Bench Software Big Bench Software: Database application for transgenic mouse colonies. Built-in networking capabilites, for both Mac and PC. Downloadable demo version. (Software) http://www.bigbenchsoftware.com/ Advanced Genetics Wizard Advanced Genetics Wizard: Online program that calculates the distribution of offspring genotypes from dominant, codominant and recessive gene crosses, for up to 6 genes. (Software) http://www.geneticswizard.com TagSorter TagSorter: Database application designed to simplify the collation, sorting, comparison and identification of SAGE tag sequences. (Software) http://www.tagsorter.com Statistical Genetics Software Statistical Genetics Software: Collection of primarily Fortan programs for genetic analysis. Requires registration to download. (Software) http://www.biomath.medsch.ucla.edu/faculty/klange/software.html MuStaR Sequence Variant Database Software MuStaR Sequence Variant Database Software: Designed to create a database of mutation loci, to make this information available to as many people as possible. (Software) http://www.hgu.mrc.ac.uk/Softdata/Mustar/ GENtle, GENtle,: Application 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). (Software) http://gentle.magnusmanske.de/ CircuSoft Instrumentation LLC CircuSoft Instrumentation LLC: Transgenic mouse colony tracking and management software for Mac or Windows. Includes demo software and manuals. (Software) http://www.circusoft.com/gmouse.html Progeny Software Progeny Software: Supply pedigree drawing and genetic data management software for genetic research with a built-in customizable relational database. (Software) http://www.progeny2000.com