A very powerful java bytecode viewer and decompiler which makes use of the javassist open source library.
Binner for assembled metagenomes
The Metawatt binner is a graphical binning tool that makes use of multivariate statistics of tetranucleotide frequencies and differential coverage based binning. It also performs taxonomic assessment of binning quality (via diamond BLASTx). Created bins can be edited and exported as fasta. The Metawatt is implemented in Java SWING and minimally depends on Diamond, HMMer3.1, BBMap, Prodigal and the Batik library for the export of SVG graphics. Citation: Strous M, Kraft B, Bisdorf R, TegetMeyer H (2012) The binning of metagenomic contigs for microbial physiology of mixed cultures. Frontiers in Microbial Physiology and Metabolism 3:410. doi: 10.3389/fmicb.2012.00410
The ideal Operation System, BioInfoServOS, which is a specially customised system for scientists handling and analysing biological data, but also for easy use of daily official business handing, has been distributed. Offcial Website: [http://edu.bioinfoserv.org] (edu.bioinfoserv.org)
NEW OPTIMIZATION TECHNOLOGY & PLANNING EXPERIMENT. Technology is designed for multidimensional optimization practical problems with continuous object functions. Technology higher efficiency than traditional optimization methods.
A three dimensional cube with pictures on it.
The cube tumbles about the screen while the pictures change. To configure just click on the screen.
This project proposes a virtual laboratory for social scientists interested in the modelling, analysis and behavioral simulation of power relationships within organizations and more generally in systems of collective action. This software is grounded on the works lead by Sibertin-Blanc and Roggero on the formalization of the Sociology of Organised Action [Crozier and Freidberg]. Visit the homepage of the project on soclabproject.wordpress.com for tutorials, examples and further theoretical position.
Quickly Search THOUSANDS of Archives!
If you have ever tried to locate files, classes, and resources buried amongst an ever shifting locus of ZIP and / or JAR files, we feel your pain! After spending far too much time searching hundreds of archives for moving targets, I decided to write JarOMine. Originally designed for locating Java classes, JarOMine works equally well with ZIP archives, too.
Rapidly generate a DAO for SQLite
Complete source code, usage example, & a code-generated test case are included in the .jar file. ( See main.java for the usage / code generation example )
A frame work for Multi agent system development
MaSMT is a java based multi-agent system development framework, especially designed for development of English to Sinhala machine translation system. MaSMT also capable to develop any multi-agent based system through its architecture. Reference: B. Hettige, A. S. Karunananda, G. Rzevski, Multi-agent solution for managing complexity in English to Sinhala Machine Translation, International Journal of Design & Nature and Ecodynamics, Volume 11, Issue 2, 2016, 88 – 96. B. Hettige, A. S. Karunananda, G. Rzevski, ” MaSMT: A Multi-agent System Development Framework for English-Sinhala Machine Translation”, International Journal of Computational Linguistics and Natural Language Processing (IJCLNLP), Volume 2 Issue 7 July 2013.
Scripts for analysing NGS data
These scripts written in java can be used for deep sequencing analysis of the scFv antibodies from a synthetic antibody library and yields complete sequence information on the randomized areas of antibodies enriched from the library by phage display. The methods are descriped in Lövgen, J., Pursiheimo, J.P., Pyykkö, M., Salmi, J. & Lamminmäki, U. (2016) Next generation sequencing of all variable loops of synthetic single framework scFv – application in anti-HDL antibody selections. New Biotechnology 33:790-796.
DBLX3 Relational Database System
DBLX 3.1 is available! DBLX is a multi-user, client-server relational database. The design goals of DBLX are to produce a very small, very fast database which can be used with standard ANSI sql. DBLX source code is available in C# and Java. DBLX includes the server component, a command-line client, as well as client APIs. DBLX is well-documented so that you can just get the database, drop it on to your favorite system and start using it immediately. Go to the Discussion section to read the latest on DBLX!
Generate Java and PHP database apps from abstract Event-B models.
EventB2SQL is a Rodin plugin for generating database applications from abstract Event-B models. EventB2SQL generates code for four types of applications: * Java with MySQL backend (JDBC) * Java with SQLite backend (JDBC) * Java for Android with native SQLite backend * PHP with MySQL backend (PDO) EventB2SQL can translate abstract Event-B models that use features such as: * enumerated sets * variables of set and relation types * simultaneous assignment * set comprehensions * quantified assertions See the wiki for installation instructions and brief usage examples.
File Transfer Tooling
Fiark is a File Transfer Tool (FTT.) Unlike a backup, an FTT is designed to QUICKLY copy ("float") files between a DIVERSE set of computing environments.
Core library of Jaaz Portal
Core library for Jaaz Portal project
An Interactive Visualisation for Tabular Data
TabuVis is a comprehensive visual analysis tool that provides a flexible, customizable and interactive visualization for tabular (or multidimensional) data. It utilizes scatter-plot visualization approach to provide comprehensive and interactive views for different attribute mappings. It provides both single scatter-plot and multiple scatter-plots. The project is available at: http://staff.scem.uws.edu.au/~vinh/projects/TabuVis/
A Java front-end to the dnrDALMAS Prolog Module.
A Java front-end to the dnrDALMAS Prolog Module, as described in the following paper: Hjelmblom, M., & Odelstad, J. (2009). jDALMAS: A Java/Prolog Framework for Deontic Action-Logic Multi-Agent Systems. In A. Håkansson, N. Nguyen, R. Hartung, R. Howlett, & L. Jain (Eds.), Agent and Multi-Agent Systems: Technologies and Applications (Vol. 5559, pp. 110–119). Berlin / Heidelberg: Springer. http://urn.kb.se/resolve?urn=urn:nbn:se:hig:diva-3963
Plane frame static and dynamic analysis