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PepT-IDE is a protein analysis tool that is used for multiple sequence alignment, 3D visualization and displaying protein contact maps for protein sequences and structures. It also has feedback communication between the different views of the protein.
JLink lets users author flow charts based on ISO 5807 and IBM standards. Developers can use JLink to add flowcharts to applications, serve a flow chart over the web in PDF or PNG, or dynamically create a flowchart with Javascript, Python or Ruby scripts
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PARs is a bioinformatics tool for the analysis of cis-regulatory DNA sequences. Composed of two parts: a suite of sequence analysis algorithms for predicting cis-binding sites in DNA sequences and a GUI for visualisation and exploration of the results.
Biological Annotation Tool is a general-purpose high speed environment for manipulating biological sequence annotations in multiple input and output formats. A plugin-style API permits much extensibility.
Crawl a LiveJournal-based blog hosting for friends data. LiveJournal is a blog hosting engine that allows its users to list others as friends. This tool can download most of the data about friendship relations between users for later processing.
Cellogica is a cellular logic analysis tool. It incorporates sequential logic and finite state machine to elucidate the relationship between transcription factors and corresponding gene expression.
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Yabman is a tool for managing bibliographic references. Its key features are a quality user interface, a carefully designed data model, and sophisticated three-state hierarchical reference labeling. It is currently usable but in a pre-alpha stage.
DNAID software is a tool for assessing confidence in biological identifications made by comparing DNA sequences. It allows DNA sequences to be placed within a taxonomy and determines confidence in matches of a query sequence to each taxon.
Python library to convert networks from/to many different formats, like the ones used in Pajek, Cytoscape and other popular graph formats like GML. It also includes support to integrate experimental data to the netowork.
A mouse tracker for OS X. The tool should provide a simple way to log the user's mouse movements in the background for (later) analysis. Currently only for Mac OS X (ObjC & Cocoa), planned to make platform independent with Python. It consists out of two
Dowser is a research tool for the web. It clusters results from search engines, associates words that appear in previous searches, and keeps a local cache of all the results you click on in a searchable database. It helps you keep track of what you find.
pyCatalog is a Python, MySQL, wxPython, Reportlab application specifically usable in library and information centers. It simply produces book catalog and card catalog in pdf format rendered using reportlab. The program takes MARC file as its source data.
Rocksnake takes localities from geological mapping projects and plots them in 2D, over an optional basemap. Each locality has all the standard geology notebook contents and photos attached to it which can then be viewed from Rocksnake.
jrgp is a strong-typed Genetic Programming system, which features a graphical interface (gool) to setup and run GP-problems and a tool (fs-d) that greatly simplifies the definition of a GP-problem.
JReferences is a tool to store and retrieve bibliographic references from a file or MySQL database.
It reads BibTeXML, DocBook XML and RIS type references, and can output these and BibTex.
A bibtex like alternative is also provided for DocBook XML docu
Project Galileo at Sourceforge.net aims to provide developers a unique opportunity to develop open source software for an on-line telescope for schools across the UK. See http://www.projectgalileo.org.uk for more details.
GGGG's a Great Grid Generator (4G) is a boundary fitted, curvilinear, grid generation tool for 2-d finite difference modeling. It is written in Python with the Numeric extensions. Most classes have been written, but it does nothing useful, yet...
Networked training tool for Air Traffic Controllers
Crujisim is a tool to allow Air Traffic Controllers trainees to practice in a radar environment. Different users connect to a hosting server to act either as controllers for adjacent positions or pseudopilots.
Distributions Networks Analyzer (DNA) is a tool for simulating (power flow) and analyzing electrical distribution networks. Users can easily implement and test their own power flow, optimal power flow and control algorithms.
Dasema is a compact C++ library for interpreting mathematical formula and applying them to data points/sets. It supports multiple variables and comes with a tool for benchmarking, a C++ GNU-like frontend as proof-of-consept and SWIG interface to Python.