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The Flow Cytometry Laboratory Information Management System (FlowLIMS) is a web-based software system that gives users the ability to create and manage experiment protocols for the DiVa and FACScan flow cytometers
DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV
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Data and animal management software for large-scale phenotype screening Used by GNF for mouse ENU mutagenesis project. Data visualization & analysis, animal husbandry management, & automated QTL mapping. Usable as stand alone animal husbandry system.
The Electronic Laboratory Notebook (ELN) - a collaborative, web-based analog of the paper notebook. The ELN can be used to share and record text, images, 3-D molecular structures, live graphs, etc. and can be extended to support additional data types.
LT4eL (Language Technology for e-Learning) develops a framework of multilingual language technology tools and semantic web techniques for improving the retrieval and the metadata annotation of learning material.
@Note2 is now available in www.anote-project.org
@Note is a Biomedical Text Mining workbench that integrates current Biomedical Text Mining (BioTM) methods and provides biologists with intuitive tools capable of supporting their bibliographic searches and further literature curation.
The goal of the GeneText project is the development of a software package that will enable users to dynamically generate an information summary page from multiple sources given a search term. Fields of interest are biology, genetics and bioinformatics.
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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.
MutationFinder is a biomedical natural language processing (NLP) system for extracting mentions of point mutations from free text. MutationFinder achieves high performance (99% precision, 81% recall on blind test data) as an information extraction system
BioStream enables bioinformatics researchers to create, query and apply tools to their own databases. It supports sequence files and other data types by allowing the creation of metadata definition files.
The BioArray Software Environment (BASE) v1.2 is a comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis. PrognoChip-BASE extends BASE v1.2.16, providing more functionalities.
Howe is a spoken dialogue system project designed for browsing instructions. The project serves as a base for research on new dialogue system capabilities.
hypKNOWsys aims at developing a Java-based workbench for knowledge discovery and knowledge management. Currently, hypKNOWsys has released two intermediate tools: DIAsDEM Workbench (text mining for semantic tagging) and WUMprep (Web mining pre-processing)
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.
Design and develop Recommendation and Adaptive Prediction Engines to address eCommerce opportunities. Build a portfolio of engines by creating and porting algorithms from multiple disciplines to a usable form. Try to solve NetFlix and other challenges.
LabJ-ng is a laboratory notebook for organic chemists. It has a client-server architecture with a web browsers interface. Data is stored on MySQL database. Chemical reactions are drawned in java applet window. See projct website for example.
CosmicOS is a framework for creating stand-alone messages suitable for sending to ourselves in the distant future, or to use in SETI research. It is inspired by Hans Freudenthal's language, Lincos, and Carl Sagan's book, Contact.
The Canopy project is an initiative to merge and expand the functionality of Perl-speaks-NONMEM (PsN), Census, Xpose and PopED. The goal is to produce a coherent, inclusive and convenient platform for pharmacometric data analysis.
VoxForge collects user-submitted speech audio files for the creation of Acoustic Models for Free and Open Source Speech Recognition Engines such as HTK, Julius, ISIP and Sphinx.
Life Science Identifier (LSID) resolution protocol, to locate biologically significant data over a network, within middle-ware providing a client A.P.I. for Life Science applications, and server software, for Industry data providers.