Search Results for "linux command" - Page 12

AnnaF is an automatic gene annotation framework, that is used to do some automatic annotation for C. higginsianum. It was also tested on F. graminearum and should work well for fungi in general. AnnaF was build upon the pipeline framework Anna.

* Java classes for parsing text, conversion to XML or to evaluate in Java. The parser is textual-script-controlled with a syntax near Backus Naur Format, named ZBNF. * Some routines for conversion: C-Header or Java to XMI, XML-Documentation generation,

This easy to run and change program for developers, it contains several evolutionary based strategies allowing you try among some function samples

Avenzoar is a one-year exploration of renal cell carcinoma morphology and its related single nucleotide polymorphisms (SNPa) as a method of automating diagnosis of cancer by using a computer-aided decision tree controlled by analytical statistics.

A Java system to decode the WMO BUFR format for weather data and translate it to XML.

Maximally flat (maxflat) digital filter design in Java, with arbitrary numbers of poles and zeros. "Maximally flat" means that the magnitude frequency response has the maximum number of vanishing derivatives at 0 and pi.

DawNLITE is a Natural-Language-based Image Transmoding Engine. The software transforms an image to a video as recorded by a virtual camera panning and zooming over the image, following a natural language text description of the image.

A cross platform Open Source implementation of Digi's "Digi Discovery" utility as well as a Java library providing the features of the ADDP (Advanced Digi Discovery Protocol) protocol. The protocol is documented at http://qbeukes.blogspot.com/search/label/advanced%20digi%20discovery%20protocol

This is a reference implementation of snoBAC, a Bayesian Classifier designed to predict box H/ACA snoRNAs in Caenorhabditis nematode genomes. For details of algorithm and data, see Wang and Ruvinsky (2009) RNA in press.

This project contains a set of files (Perl, Java, and an R package) used to perform analysis of oligonucleotide signatures in metagenomes and genomes.

ConTextKit is a Java-based implementation of Wendy Chapman's ConText algorithm for annotating the context of medical documents, specifically the negation, temporality, and experiencer.

Convert a "line string" from a .kml file to a "route" in another .kml file. I started this project to use google maps for routing at home and a very simple GPS-device for following the route while on the road.

ARTADE (ARabidopsis Tiling-Array-based Detection of Exons) is a standard tool for the automatic annotation of genome-wide tiling-array data in Arabidopsis. ARTADE is a program originally written by Dr. Tetsuro Toyoda, RIKEN, Japan.

A Monte Carlo Micro Black Hole event generator for Particle Physics.

A verilog language compiler written using Java and JavaCC. It produces a netlist, an ascii text file, of all the cell connections. It can compile very large circuits comprised of many modules.

The Unified Search Framework is an HPC tool for conducting search optimization and experiment design on High Performance Computing platforms. USF has been designed for platforms containing thousands of processors, and tested to 10,000 CPU cores.

A command line java tool that allows creating images of earthquake occurrences plotted on a map over time. These images can then be used to create a video / animation (with a seperate tool like mencoder)

Goldify is a set of tools that allow automated addition of links into electronic documents. Its main purpose is to allow such addition of links into documents that wish to link to the IUPAC GoldBook (http://goldbook.iupac.org).

A simple little program, that can convert quaternions from a exponential form to a usual form. I will argue for this method, which I find very natural and quite intuitive.

Tool for retrieve, via Web, statistics from bug trackers in free/open source software projects. The aim of this software is to provide researchers with statistics about bug-fixing process in a project

With OSM Parser it is possible to process OpenStreetMap geodata for various purposes. For example, it can be used to extract streets or other OSM elements for user defined regions to generate a street directory.

OpenGGD aims to be a solution that centralizes the GPS information of a vehicle fleet, acting as an interface among different GPS devices or their control programs and different GIS programs

JColorGrid is a Java application for graphical 2D data exploration and rendering of colorgrids, a generalization of the popular heat-map representation. The software exists as a command-line application, a graphical viewer, and an API for development.

Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Originally developed by Paracel, a Celera Business, this code base was released as open source in 2006. TraceTuner was used by Celera to call 30+ million reads from both Drosophila and human genome sequencing projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. Later versions of...

Utility to translate "dvorcodes" (Dvorak keycap-encoded phrases) into their actual key values. For instance the dvorcode for "password" is "laoo,rpe". Use this tool to discover your dvorcode passwords when you must enter them on a QWERTY keyboard.