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Thea, Tools for High-throughput Experiment Analysis, is an integrated information processing system dedicated to the annotation of data issued from classification systems with biological information coming from a knowledge base.
This program will calculate and output metrics on code written in Python. Reports can be generated in text- or XML-files. A plug-in system lets new metrics be added to the program. A set of built-in plug-ins with provide some of the most common metrics a
pystats is a comprehensive Python module implementing algorithms for statistics and information theory, including probability distributions, descriptive statistics, analysis of variance, regression, and inference.
MicroArray Genome Imaging and Clustering Tool (MAGIC tool) is a platform-independant java program for analyzing MicroArray data (.tiff scans & .txt godlists) via graphs and clustering operations (including QT-clustering). http://www.bio.davidson.edu/magic
Robotic Manipulator Development and Simulation Environment in Python and Blender. IMPORTANT: Development moved to github. http://github.com/ajnsit/r2d3
The Handwritten project aims to provide software for open distribution of handwritten notes. A rudimentary datastructure containg strokes made by writing devices as for example palm computers, digital pens, etc, is implemented in both Java and C.
brCluster is a class library, written in java, that implements generic clustering algorithms carefully designed to allow its aplication in any kind of data. The algorithms implemented are K-means and Hierarchical Clustering (Simple and Complete Link).
phpTrafMon is a set of scripts written in php. It shows in an attractive and user-friendly way the traffic in a local network and a share in it of every user. phpTrafMon requires MySQL, crontab and a popular IPFM program.
Read single-band NASA PDS (Planetary Data System) Image files in Python. Query header information and extract binary image data in a format suitable for PIL (Python Imaging Library). Works for Pathfinder and Mars Exploration Rover images, maybe others.
A tag based personal note taking system, written in python using sqlite.
This program is designed to help you organize your thoughts. It uses tags in a way similar to Gmail's "labels" or del.icio.us tags. Any contribution welcome!
BioCSharp is an open-source project designed to provide a bioinformatics .NET framework for processing biological data. It will include objects for manipulating sequences, file parsers, DAS, database access and analysis and statistical routines.
Celerity, an open-source, Java based data-flow architecture that provides high performance with fine data granuality. Celerity offers a module based programming environment, which can parrellelize across processors, machines and architectures.
TAS (Transcription Analysis System) is a multi-tier framework for running parameterized SQL queries. Users can analyze new data or new combinations of data with a few clicks in a GUI. Potentially complex/repetitive database interaction is all automated
MBAS -- Macro-Biological Analysis System -- provides a set of interoperable tools for aid in the analysis of biological data. The backing database is currently PostgreSQL and the primary language is C, though some data entry tools are written in Java.
GATA is a graphic alignment tool for comparative sequence analysis. It makes use of BLAST to graphically align two DNA sequences, creating box- line- box representations of window scored local alignments. GATA also displays extensive GFF gene annotation.
A mechanism for identifying, acquiring, transforming, and serving data from multiple geographically diverse, heterogeneous data sets from a common data portal. This work is funded by a NASA Advanced Information Systems Technology (AIST) grant.
The fst2v5d package converts data stored in the Canadian RPN Standard File (FST) format into Vis5D format. FST files, commonly used to store meteorological data, are scanned by fst2v5d to generate both 4D fields and independent topography input files.
BLIX is a cross-platform set of Python extension modules and Python scripts for Blender (www.blender.org). These scripts add camera calibration, 3D reconstruction and rigid body orientation to Blender.
Viewmol is a graphical front end for computational chemistry programs. It is able to graphically aid in the generation of molecular structures for computations and to visualize their results.
A Java software for 3D visualization of graphs/networks. It implements many graph layout algorithms (such as force-directed methods), graph generators (such as scale-free networks) and graph modifiers. Most functions can be accessed through its GUI.