Open Source Unix Shell Scientific/Engineering Software for Linux

DCMLinux is a complete PACS system, free of charge. Its core is an Ubuntu 14.04 system fully updated and it contains the DCM4CHEE as its PACS server. In the near future it will contain many other addons such as Weasis, Oviyam, Care2x, etc. Just download the iso, burn it to a CD and boot it up. No need to configure any files of dcm4chee, DCMLinux installer asks for everything it needs to configure a running PACS in minutes. Project Wiki : http://wiki.dcmlinux.org Project Forums: http://forums.dcmlinux.org

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

Provides auxiliary tools for the Monte Carlo particle transport code FLUKA (www.fluka.org).

Aelius is an ongoing open source project aiming at developing a suite of Python, NLTK-based modules and interfaces to external freely available tools for shallow parsing of Brazilian Portuguese. It also includes language resources such as language models, sample texts, and gold standards. Presently, Aelius already offers facilities for POS-tagging and chunking corpora and outputting annotations in different formats, such as in XML in the TEI P5 encoding scheme.

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

Calculate electronic properties of graphene-like systems with a user friendly interface. The code uses the tight binding approximation and it is able to stude in a 0D, 1D and 2D geometries, orbital and magnetic fields, intrinsic and extrinsic spin-orbit coupling, sublattice imbalance, and interactions at the mean field level. The most recent version can be found in https://github.com/joselado/quantum-honeycomp Example videos https://www.youtube.com/watch?v=8gO1yRmwgAs https://www.youtube.com/watch?v=FQlkqAW7Nhs https://www.youtube.com/watch?v=R7Kt3_DHTtM https://www.youtube.com/watch?v=tQKG_h0FaTM

RoboComp is a robotics framework providing a set of open-source, distributed, real-time robotic and artificial vision software components and the necessary tools to create and manage them.

SimPET (http://www.sim-pet.org) is an open, efficient, and user‐friendly online platform for the generation of synthetic brain PET datasets. The platform offers the ability to generate realistic activity and attenuation maps from patient's PET/CT and MRI images. These maps can then be simulated, and sinograms and simulated images can be downloaded. More advanced features can be obtained by using the SimPET scripts: https://github.com/txusser/brainviset_simset https://github.com/txusser/simpet (New version pre-alpha) You can also upload your own phantoms to simulate. Currently the platform incorporates MC models for the GE Advance, GE Discovery ST and Siemens mCT. More models are on the way. You can also access all the previously simulated datasets from the dev team to test your quantification pipeline (Files section in this page). This project is an open collaboration between IDIS (www.idisantiago.es), Qubiotech (www.qubiotech.es), and FGUMA (www.fguma.es).

TEACUP automates many aspects of running TCP performance experiments in a specially-constructed physical testbed. TEACUP enables repeatable testing of different TCP algorithms over a range of emulated network path conditions, bottleneck rate limits and bottleneck queuing disciplines. TEACUP utilises a text-based configuration file to define experiments as combinations of parameters specifying desired network path and end host conditions. When multiple values are provided (e.g. for TCP congestion control algorithm), an experiment is made up of multiple tests. For each experiment and test, TEACUP collects a range of data, such as tcpdump files of traffic seen or TCP stack information (e.g. using Web10G). TEACUP also collects a variety of metadata from the end hosts and bottleneck router, such as the actual OS/kernel version(s) used. TEACUP also provides some simple tools for analysing the results of experiments, such as plotting a flow's experienced RTT over time.

That project aims at studying and comparing typical airline IT methods, for instance RM-related algorithms. It works from a Unix/Linux/Mac command-line, and exposes basic APIs. It is being developed in C++, with Python wrappers for some components.

The WISDOM project is a Grid based production environment used to deploy bio-informatics large scale applications.

The active use repository has migrated over to: https://github.com/darrenabbey/ymap The repository here was errantly created with some large binary files included. Attempts to extract the files from the history here have failed. A copy of the history was successfully scrubbed and then hosted at github. -------- Eukaryotic pathogens have complicated and dynamic genomes. To facilitate analysis of copy number variations (CNV), single nucleotide polymorphisms (SNPs), and loss of heterozygosity (LOH) events in Candida albicans, the most common human fungal pathogen, we developed a pipeline for analyzing diverse genome-scale datasets from microarray, deep sequencing, and restriction site associated DNA sequence experiments for clinical and laboratory strains. The YMAP pipeline automatically illustrates genome-wide information in a single intuitive figure and is readily modified for the analysis of other categories of data and other pathogen species with small genomes.

https://sourceforge.net/p/contools/contools/ci/master/tree/README.md https://sourceforge.net/p/contools/contools/ci/master/tree/README_EN.txt https://sourceforge.net/p/contools/contools/ci/master/tree/README_EN.deps.txt https://sourceforge.net/p/contools/contools/ci/master/tree/changelog.txt

This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function.

miRPV is an Automated tool that allows users to predict and validate microRNA from genome/gene sequence. System Requirement CPU: AMD64 (64bit) Memory: 2Gb RAM Storage: 5Gb Ubuntu 18.04

A tool for autonomous and virtual topical data integration using the focused web-harvesting method.

https://sourceforge.net/p/tacklelib/tacklelib/ci/master/tree/README.md https://sourceforge.net/p/tacklelib/tacklelib/ci/master/tree/README_EN.txt https://sourceforge.net/p/tacklelib/tacklelib/ci/master/tree/README_EN.deps.txt https://sourceforge.net/p/tacklelib/tacklelib/ci/master/tree/README_EN.linux_x86_64.txt https://sourceforge.net/p/tacklelib/tacklelib/ci/master/tree/changelog.txt