Search Results for "research" - Page 68
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Showing 2867 open source projects for "research"
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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
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GarlicSim is an ambitious open-source project that attempts to redefine the way that people think about computer simulations, making a new standard for how simulations are used. It is not hosted on SourceForge; Visit http://garlicsim.org to get it.
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Cyberbit
Visual Cryptography and Bit-Plane Complexity Segmentation in Python
Hide secret messages in your pictures! Cyberbit lets you transmit a secret message to an intended person in a new manner. The secret message is an 1-bit deep black & white image. The message can contain written text, a drawing, a secret code etc. Using Visual Cryptography the application splits the secret message into two "shadow images" called <<shares>>. Any of the two shares will be embedded into a "normal" image file called by tradition <<vessel>>. You can use a method of hand to... -
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PyMbs has moved to Bitbucket: https://bitbucket.org/pymbs/pymbs PyMbs is a Python library for modelling holonomic multibody systems. It is able to generate simulation code for Python, Modelica and Matlab.
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pyTRAX
ODEs solver with GUI
This small program named TRAX is capable of solving systems of ordinary differential equations and plotting the solution on a phase plane as well as function of time. The program is intended for educational purposes. The program runs on any Python-enabled platform, including GNU/Linux and MS\Windows OSs. To run the program you will need a python interpreter ver. 2.x and compatible versions of numpy, scipy and matplotlib libraries. See screenshot for usage reference. -
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dAnalytics
dAnalytics is a software made for education in discriminant analysis.
dAnalytics is a software made for educational purposes to work with discriminant analysis. It's a very simple calculator over bi-dimensional populations. You input a file with two columns (one for each variable) and tryout different separations of populations (blue and red) and analyze it's efficiency by observing the eigen value result for the attempted separation. It also gives many information about the statistics both of the input and the separated populations. There's a documentation... -
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HPeak
A HMM-based algorithm for defining enriched regions from ChIP-seq data
HPeak is a hidden Markov model-based approach that can accurately pinpoint regions to where significantly more sequence reads map. Testing on real data shows that these regions are indeed highly enriched by the right protein binding sites. Command (single-end): perl /compbio/software/HPeak3/HPeak.pl -sp HUMAN/MOUSE -format BED -t TREATMENT.inp -c CONTROL.inp -n OUTPUTPREFIX -fmin 100 -fmax 300 -r 36 -ann -wig -seq -interfiles Command (pair-end): perl /compbio/software/HPeak3/HPeak.pl... -
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steganoroute
Send steganographed text messages to mtr with fake hops in the network
Steganoroute is a tool to send steganographed text messages to another computer over the network. The receiver must make a traceroute to the sender using the mtr program (and pressing 'd' once to switch the display mode to the continuous graph). This tool, the sender, creates several fake hops and makes them answer the ICMP packets (or not) to write the letters one by one on the mtr client screen. -
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This ROS (Robot Operating System) repository contains the ROS packages for using ROS with the Webots mobile robot simulation software.
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Mix
Mix is a tool to combine multiple assemblies from NGS data.
Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices represent extremities of contigs and edges represent existing alignments between these extremities. These alignment edges are used for contig extension. The resulting output assembly corresponds to a path in the extension graph that maximizes the... -
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BRAHMS is a Modular Execution Framework for dynamical systems. It knits together independently-authored software modules implementing dynamical processes into an integrated system, and supervises the deployment and execution of that system.
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Moved to https://github.com/rdiankov/openrave An open-source, cross-platform, plugin-based robot planning environment for autonomous robotics. Includes services like collision detection, physics, (inverse) kinematics, sensors, robot controls, python bindings, and a network scripting environment.
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IMPORTANT: The project moved over to github! You can find it at: https://github.com/exhuma/python-cluster
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The igraph library
Library for creating and manipulating graphs
This is a library for creating and manipulating graphs with focus on speedy operations for large, sparse graphs. -
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VoiceCode is an Open Source initiative started by the National Research Council of Canada, to develop a programming by voice toolbox. The aim of the project is to make programming through voice input as easy and productive as with mouse and keyboard. For install, Use subversion, as described in this page: http://sourceforge.net/apps/mediawiki/voicecode/index.php?title=VCode_1_Doc/InstallationManual.
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GEPETTO - Gene Prioritization in Java
GEPETTO (GEne Prioritization ExTended TOol)
GEPETTO (GEne PrioriTization ExTended TOol) is an original open-source framework, distributed under the LGPL license, for gene selection and prioritization on a desktop computer that ensures confidentiality of personal data. It takes advantage of the data integration capabilities in the SM2PH-Central Framework(KD4v,MSV3d,BIRD,..), combined with in-house developed gene prioritization methods. It currently incorporates six prioritization modules, based on gene sequence, protein-protein... -
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STP
MOVED TO GITHUB. Code here is STALE.
THE STP CODE HAS MOVED TO GITHUB. THE CODE HERE IS STALE. PLEASE CHECKOUT THE FOLLOWING WEBSITE: http://stp.github.io/ -
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Application to create 'electronic fluorescent pictographic' representations of gene expression patterns. Created at the Provart lab of the department of Cell & Systems Biology, University of Toronto.
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Ablator
A tool for automating laser ablations for neuroscience
Ablator is a suite of software that automates the microscopic detection of cell targets and also directs a 2-photon microscope to lesion these targets in arbitrary patterns for neuroscience research. See Hayes et al 2012 for an example of its usage (http://www.pnas.org/content/109/21/8286.abstract). -
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WTMParse
Python script to parse Unix-like WTMP files
Python script that was originally intended for use in forensic examinations that parses WTMP files from Unix-like operating systems and generates a CSS-styled HTML report containing login terminal, username, log start date and login time/date in a table. Good for postmortem forensic examinations or as a way of getting "last" like information where you don't have the ability to boot the machine in question but can grab the wtmp. -
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pySTEP or Python Strongly Typed gEnetic Programming: A light Genetic Programming API that allows the user to easily evolve populations of trees with precise grammatical and structural constraints.
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Package to interface and control an Astromech Droid (Star Wars' R2-D2 and friends) replica using Willow Garage's ROS Robot Operating System. Please visit http://astromech.net for info on Astromech replicas and ros.org for info on the ROS system.
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EduLB
The educational lattice Boltzmann code
EduLB is a small and easy to handle lattice Boltzmann code for channel flow. Main objective is to give interested people the opportunity to play around and see how things work. For feedback, leave a review, leave a comment on the discussion page or send me a private mail. -
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This project has been moved to https://bitbucket.org/pbazant/evoversum/src/master/ . Evoversum is a fast Darwinian evolution simulator. The program simulates a 2D world populated with "animals" which struggle for food, reproduce and may also eat each other. The subject of evolution is their behavior, which may become quite complex. There is an updated video tutorial at http://www.youtube.com/watch?v=nPkZvyVDWJU !
