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iGOR: interactive graphical ogr reprojector. iGOR is a windows graphical user interface for the GDAL ogr2ogr {http://www.gdal.org/ogr2ogr.html} developed in Java.
The Antigen Variability ANAlyzer (AVANA) tool uses information entropy to measure variability in protein sequence alignments. It also compares alignments using mutual information, identifying the mutations that characterize specific sequence sets.
Ever got confused while remembering all the various physical properties of all the standard 20 amino acids? Then use Amino Acid Finder!!
It has a built-in database and contains information about all the physical properties and lets you to search them
A program for organizing and commenting textual citations from texts (books, articles or other published works) for use in producing scientific or academic publications. Works together with EndNote, RefWorks and BibTeX. Exports to PDF and Word (RTF).
ElectroMimic is an electronic circuit simulator in Java™. The simulator is focused on the piecewise-linear models normally used by undergraduate students, but can also be linked with external simulation software for more realistic results.
propose a support for defining mappings between elements in generic models and elements in the designer’s models,help to create consistent and relevant models integrating the generic and specific ones and taking into account the mappings between them
The PlanetLab Visualizer is intended to help users to run their experiments on PlanetLab hosts. The main advantages are the ease of use and the support for Linux and Windows OSes.
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 project to help students calculate symbolic derivatives and integrals. Plus, a Java expression tree library for developers who may need to do such things in their programs.
The project has moved to github: https://github.com/generalpenguin89/calchelper
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Aim is to extract the information from the cadastral maps which is stored as scanned images. The extracted information is stored using graph representation. Then we convert these infomation in to CityGML format to visualize and communicate.
A Controlled Language Programming (CLP) compiler, runtime engine, and development IDE for writing software in a natural (but somewhat restricted) language that clearly represents the real world concerns and maps to a 3GL (Java/Groovy) for execution.
G.A.V. (Graph Algorithm Visualizer) is a tool that visualizes algorithms from graph theory. A step-by-step visualization from each different algorithm allows the user to understand the particular algorithm very easily.
HicCalc is a scientific utility written in Java,that runs on all java supported operating systems. The current release contains the graphing part of the product. Please visit http://www.hicsys.com/hiccalc.htm to check out the online demo.
This project is an easy to use Java application framework, providing enough functionalities to be fully usable. It has been developed for a scientific articles library software, but I hope it's sufficiently generic to be usable on different contexts.
The Vyper Dynamic Server framework is a pure-java library for use in the creation of backend / server platforms. VDS is specifically tailored for financial applications, and suited for many high-throughput, asynchronous and distributed environments.
JMulTiR is an econometrics package designed for univariate and multivariate time series analysis. The numerical computations and graphics are done in R (www.r-project.org), the GUI is programmed in JavaSwing with the jstatcom framework.
DNA sequencing quality values, base calling and trace processing
Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Originally developed by Paracel, a Celera Business, this code base was released as open source in 2006. TraceTuner was used by Celera to call 30+ million reads from both Drosophila and human genome sequencing projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. Later versions of...
BioWebAuth (Biometrics for Web Authentication) is an open source Java framework intended to provide single sign-on web authentication based on BioAPI-compliant biometric software or devices. It uses the JA-SIG Central Authentication Service architecture.
Earth Watch is a plug-in for Google Earth that allows one to build a classifier to discriminate homogeneous textures from data labeled using polygonal overlays which can be extrapolated to unlabeled portions of the globe for identification.