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BoulderALE is an RNA alignment editor, which allows for the annotation of basepairs, annotation and collapsing of features (horizontal) and sequences (vertical), along with 2D display of sequences and base composition given a secondary structure.
A database and a web front end for physiologic data on animal feeding, developed with PostgreSQL and Django at NESCent (http://www.nescent.org) for Mammalian Feeding Working Group (http://www.feedexp.org).
Current development of the codebase is on Github at http://github.com/NESCent/feedingdb.
mmView is the web based viewer of macromolecular Crystallographic Information File (mmCIF) format. Online ready-to-use version is available at http://ich.vscht.cz/~cechp/mmcif/ or http://ich.vscht.cz/projects/mmview/
Basic Electronical Medical Management (BEMM) is an application to control medical data of a set of patients. It is built on top of open source technologies, to provide an integration skeleton of mvn, Datanucleus, Spring, Vaadin, Acceleo technologies.
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A collection of tools for working with the comparative data analysis ontology including import/export facilities for common phylogenetic file formats, and also a triple-store framework.
A web-based system for upoading, managing, sharing, and analyzing bioinformatic data. The system is primarily written in python, and runs on both linux and MacOs.
This Project moved to https://sourceforge.net/projects/synbiowave/ because the name GeneWave is a registered trademark... Please do not use this project anymore.
A web-based repository of plasmids and biobricks (see http://parts.mit.edu) plus related utility programs that support synthetic biology research. Note: This project is not updated any longer.
A completely re-written and much better version of this web server can be found here:
http://www.rotmic.org
Wattos is a collection of mostly Java programs for Structural Biology and NMR Spectroscopy. It's programs analyze, annotate, parse, archive, and disseminate experimental NMR data deposited by authors world wide into the PDB and BMRB.
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BioMa is a specimen based Biodiversity database Manager. It is designed to store, organize, and manipulate biodiversity-related scientific data, either for the purposes of museums, scientific collections, or research projects.
RStatServer is a system for quickly developing and deploying web applications that integrate statistical computations and graphics. It is built using the Zope web application develeopment system and the open-source statistical data analysis environment R
A dialect of XUL implementing most of Mozilla XUL's Fourth Draft. XML User Interface Language (XUL) is a method for easily creating GUI applications. Lux XUL supports Python scripting via Jython 2.1.
SIP (Sample Inventory Program) is a web application for managing mass quantities of lab samples. It is the first out-of-the-box Zope 3 app, and is field-proven.
SIP may be used as-is, or as inspiration for other Zope 3 apps. (e.g. O/R RDBMS storage)
FreePM is an opensource physicians practice management / electronic medical record application.
The company providing support for FreePM nolonger exists. You may consider TORCH http://sourceforge.net/projects/op-torch/
or one of the other FOSS EMR's.
CC8Works is a Web-based software system for managing and documenting a cross of eight existing inbred mouse lines to yield hundreds to thousands of recombinant inbred lines that will become a permanent genetic resource for biomedical research.
The NMR Restraints Grid (NRG at http://www.bmrb.wisc.edu/WebModule/MRGridServlet) contains the original NMR restraint data (distance, dihedral angle and RDC) and the parsed, converted, and filtered for ~4,000 protein and nucleic acid structures with corr
Maximal Clique Motif Reduction (MCMR) is a software program for running and then combining the output of multiple motif finder programs, such as MEME, AlignACE and Weeder, into a set of consensus predictions with associated confidence rankings.