| 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. |
| Broad Institute Genetics Software | | Offers a wide range of software for genome sequence analysis, genetic variation, linkage analysis, expression analysis, and PCR primer selection. |
| CounterTrace II DNA Sequencing | | Software and reagent for improving the quality and read length of DNA sequence traces collected on the ABI 3730 DNA sequencer. |
| CREME: 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. |
| Gene Expression Open Source System | | 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. |
| GeneSifter | | 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. |
| Genetic Linkage Analysis | | Offers links and other resources for genetic analysis software from the Rockefeller University. |
| 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. |
| Genex 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. |
| GENtle | | 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). |
| Hands on Genetics | | Instructional software for basic genetics, such as DNA, PCR, Mendel, Hardy-Weinberg, meiosis and computer simulations. Freeware for Mac and Windows. |
| 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. |
| Mutation Explorer | | Software to automatically detect mutations from DNA sequence data, including homozygous, heterozygous, insertion and deletion. |
| Pegasys | | Open source software for executing and integrating analyses of biological sequences. Includes documentation and installation instructions. |
| PyMoods | | 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. |
| STRand | | Open-source Windows program to automate or speed up the analysis of DNA fragment length polymorphism samples run on ABI3730, 3700 and 377 sequencers. Instructions for use and program download available. |
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