Open Source Python Scientific/Engineering Software for Linux

The Hamlib project's purpose is to develop flexible and portable shared libraries that offer a standardized API to control any radio oriented equipment through a computer interface.

The Free DELTA Project is a free, open-source, software alternative for a generic system to the processing of taxonomic descriptions based on the DELTA (DEscription Language for TAxonomy) format.

The Linux GPIB Package is a support package for GPIB (IEEE 488.2) hardware. The package contains a development environment consisting of a GPIB library written in C, kernel driver modules, and bindings for several other languages.

Arabeyes is a Meta project that is aimed at fully supporting the Arabic language in the Unix/Linux environment. It is designed to be a central location to standardize the Arabization process. Arabeyes relies on voluntary contributions.

Earth Enterprise is the open source version of Google Earth Enterprise (GEE), a powerful geospatial application suite that enables organizations to build and host custom 3D globes and 2D maps using their own imagery and data. Unlike Google Maps or Google Earth, Earth Enterprise does not include Google’s proprietary imagery but instead provides the tools needed to manage and visualize private geospatial datasets. The system is composed of three main components: Fusion, which processes and integrates imagery, vector, and terrain data into unified map layers; Server, which hosts the resulting globes or maps via Apache or Tornado-based web servers; and Client, which includes the Google Earth Enterprise Client (EC) for 3D visualization and the Google Maps JavaScript API V3 for 2D viewing. Designed for enterprise, research, and government use, it allows for secure, scalable deployment of geospatial visualization systems within private infrastructure.

The Sashimi project hosts the Trans-Proteomic Pipeline (TPP), a mature suite of tools for mass-spec (MS, MS/MS) based proteomics: statistical validation, quantitation, visualization, and converters from raw MS data to the open mzML/mzXML formats.

GGI stands for "General Graphics Interface", and it is a project that aims to develop a reliable, stable and fast graphics system that works everywhere. We want to allow any program using GGI to run on any platform requiring at most a recompile.

A minimalist approach to share text documents and data annotations. Allows a large number of different annotations to be represented. Project files contain: - simple code to hold/read/write data and perform sample processing. - BioC-formatted corpora - BioC tools that work with BioC corpora BioC goals - simplicity - interoperability - broad use - reuse There should be little investment required to learn to use a format or a software module to process that format. We are interested in reuse, and we focus on common NLP tasks that are broadly useful for textmining.

Please note that OWFS source code, and all Issue/Tickets/merge requests have now been moved to https://github.com/owfs/owfs/. Developer mailing lists will still be kept at Sourceforge. ---- OWFS -- 1-Wire file system. Use the Dallas 1-Wire and iButton chips with standard filesystem commands. Create temperature loggers. Monitor everything. OWHTTPD -- same system, only used as a light weight web server. OWFS is also ported to embedded routers, Mac OSX and Windows. Basically you can use these inexpensive little sensors and other chips with very simple wiring to sense and control the physical environment. The interface is very flexible -- everything from a web browser, to read and writing directly to the chip's "file" to integrating with your programs -- even over the internet. There is a growing number of 1-wire sensors: temperature, voltage, humidity, light, ultraviolet, pressure, thermisters, thermocouples, programmable microcontrollers, relays, lights, LCD panels, etc

A set of very optimized tools for indexing/querying huge genomes/files. Provided so far: a very fast exact mapper, and an unconstrained split-mapper

This project is for maintaining a linux system that concentrates on math, logic, and geometry related softwares.

MutationFinder is a biomedical natural language processing (NLP) system for extracting mentions of point mutations from free text. MutationFinder achieves high performance (99% precision, 81% recall on blind test data) as an information extraction system

PhyloTrack is a JavaScript--based software tool that integrates the D3.js library for data visualization with the JBrowse tool for genome browser representation. It requires a phylogenetic tree of the common Newick data format as input, as well as three meta data files for samples, clade-defining nodes and clade color definitions - all in tab delimited format. Functionality within PhyloTrack shows the informative markers at each node in the phylogenetic tree, therefore highlighting clade-defining polymorphism. This functionality has been implemented using the tabix tool on the server side, providing simple and rapid access to the information at each tree node, including informative SNPs stored in VCF-similar files. These informative variants have been established by comparing allele frequencies between strain-types using ancestral node comparisons and FST measures of population differentiation.

Synthetic Biology Software Suite (SynBioSS) is composed of a wiki for biochemical kinetic constants, a graphical interface for simulating synthetic biological pathways, and a simulator that runs on either a desktop or supercomputer.

IFEFFIT is a library and set of interactive programs for the analysis of x-ray absorption fine-structure (XAFS) data. IFEFFIT combines state-of-the-art analysis algorithms with graphical display of XAFS data, and general data manipulation. It can be

This project concerns the development of human language technology resources, based on the approach to share or recycle resources between closely related language. http://gerhard.pro/closely-related-languages/

Moodss is a modular monitoring application, composed of a GUI and a daemon, which supports any device or process for which a module can be developed. Complete dashboards with graphical viewers, thresholds, SQL database archiving, ... can be managed.

Part-of-speech tagging is the task of assigning symbols from a particular set to words in a natural language text. ACOPOST implements and extends well-known machine learning techniques and provides a uniform environment for testing.

A.I. security app. Development ceased.

The central problem to be addressed in this project concerns a multidisciplinary (linguistics and computational linguistics) investigation into sharing of knowledge and resources between closely-related languages, specifically relating to the automatic processing of compounds. Specifically, we will explore the possibility to create new knowledge about closely-related languages, and efficiently develop additional, more advanced resources for (a) compound segmentation; and (b) the semantic analysis of compounds; as such, the project will be divided into two interrelated subprojects, to be executed simultaneously. The focus in this project will be on Afrikaans (with Dutch as the closely-related, well-sourced language), which will lay grounds for future work on other closely-related language pairs.

A collection of bioinformatics-related software created by members of Cancer Research UK (possibly among others).

Language, compiler and simulator for CDL cycle description language Platforms: OSX, Linux, Cygwin CDL is a C-like language for hardware description; simulator generates C++ models and synthesizable verilog. Includes C++ cycle simulation engine.

CDNsim is a GNU/LINUX simulation tool for CDNs, written in C++ (core) and python (GUI wizard). It models: redirection policies, cache policies, TCP/IP, batch simulations, statistics extraction and more. CDNsim is uses the OMNet++ library

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.