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GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.
For the installation instructions please see Wiki page: https://sourceforge.net/p/tuit/wiki/
IMPORTANT: since version 1.0.4.0 TUIT allows to select RDP-like formatted output to improve
out of the box compatability with tools, that assume RDP-formatted input.
A new field has been added to the properties.xml, please make sure to update it to contain
<OutputFormat format="tuit"/> or <OutputFormat format="rdp"/> in the <BLASTNParameters> section.
Read our paper in Biotechniques:...
The BMF is a Software Framework developed in Java language for the creation of web applications on the server platform also Open source, in clinical, administrative and management for a healthcare company.
TopiaryExplorer has moved to GitHub. Find the new project info page here: https://github.com/qiime/Topiary-Explorer. If you need help or would like to add a bug/feature request, please do so there.
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Parsers for biological data based on scanner generators like Flex (C), Re2c(C), Jflex (Java) and Ifickle (Tcl). This scanner generators are providing easier maintainance, development and higher speed than hand written scanners. Scanner output is SQL.
TMAJ is software for Tissue MicroArrays (TMA's). Patients, specimens, blocks, slides, cores, images, and scores can all be stored and viewed. Features include advanced security, custom dynamic fields, and an image analysis program.
GTdb - Modular genotype database for all markers. The
database has core which captures information common to different
variation measurements and extensions to method and instrument
specific data.
Trauma registry suite; Data collection application and server scripts to build trauma data warehouse and perform web-based analysis reporting. Cross-platform compatible for Windows, Apple, Unix, or Linux.
The Genomic Diversity and Phenotype Data Model (GDPDM) captures molecular and phenotypic diversity data. MySQL databases are used to implement the schema. This project develops software tools (written in Java, Perl, etc.) associated with this model.
PSIMAP is the Protein Structural Interactome MAP, a map of all the domain level protein-protein interactions in the Protein Data Bank (PDB). PSIsoft is an archive of the software used to generate and analyse PSIMAP.