Search Results for "framework python" - Page 4
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Showing 171 open source projects for "framework python"
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Stochastic Rule Builder (SRB)
Modeling framework for capturing positional and temporal dynamics
We present a modeling framework aimed at capturing both the positional and temporal behavior of transcriptional regulatory proteins. There is growing evidence that transcriptional regulation is the complex behavior that emerges not solely from the individual components, but rather from their collective behavior, including competition and cooperation. Our framework describes individual regulatory components using generic action oriented descriptions of their biochemical interactions with a... -
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scipion-xmipp
Image processing framework to integrate EM software packages.
Scipion is an image processing framework to obtain 3D models of macromolecular complexes using Electron Microscopy (3DEM). It integrates several software packages and presents an unified interface for both biologists and developers. Scipion allows to execute workflows combining different software tools, while taking care of formats and conversions. Additionally, all steps are tracked and can be reproduced later on. Xmipp is a well-known package in the EM image processing. It is integrated... -
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Collective Mind Technology
plugin-based framework for systematic and reproducible experimentation
New version moved to http://github.com/ctuning/ck Collective Mind framework (cM) is an open-source plugin-based schema-free repository and infrastructure for collaborative, systematic and reproducible research and experimentation. This 3rd version (started in 2006) helps to implement, preserve, share and reproduce the whole experimental setup as connected modules and data. cM uses crowdsourcing to leverage knowledge and computational resources of multiple users. For example, it... -
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pipasic
pipasic: Protein Abundance Correction in Metaproteomic Data
Metaproteomic analysis allows studying the interplay of organisms or functional groups and has become increasingly popular also for diagnostic purposes. However, difficulties arise due to the high sequence similarity between related organisms. Further, the state of conservation of proteins between species can be correlated with their expression level which can lead to significant bias in results and interpretation. These challenges are similar but not identical to the challenges arising in... -
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fitGCP
Fitting genome coverage distributions with mixture models
Genome coverage, the number of sequencing reads mapped to a position in a genome, is an insightful indicator of irregularities within sequencing experiments. While the average genome coverage is frequently used within algorithms in computational genomics, the complete information available in coverage profiles (i.e. histograms over all coverages) is currently not exploited to its full extent. Thus, biases such as fragmented or erroneous reference genomes often remain unaccounted for.... -
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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.
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Raysect Python Raytracing Framework
A raytracing framework for optical/non-optical physics simulations
This project has migrated to github: https://github.com/raysect -
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Gadgetron
Medical Image Reconstruction Framework
Medical Image Reconstruction Framework -
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OverView
Optimization and visualization tool for CFD.
OVERVIEW is a framework for optimization that integrates the visualization of complex fluid solutions and geometries taking advantage of the high performance and cutting edge rendering techniques of modern graphic cards. -
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SocExplorer
SocExplorer, an open source System On Chip testing software/framework.
SocExplorer is an open source generic System On Chip testing software/framework. We write this software for the development and the validation of our instrument, the Low Frequency Receiver(LFR) for the Solar Orbiter mission. This instrument is based on an actel FPGA hosting a LEON3FT processor and some peripherals. To make it more collaborative, we use a plugin based system, the main executable is SocExplorer then all the functionality are provided by plugins. Like this everybody can provide... -
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MYRaf Project
An Easy GUI for IRAF Photometry
The MYRaf is a practicable astronomical image reduction and photometry software and interface for IRAF. For this purpose, MYRaf uses iraf, PyRAF and alipy via great programming language Python and Qt framework. Also MYRaf is a absolutely free software and distributed with GPLv3 license. You can use it without restrictive licenses, make copies for your friends, school or business. -
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Pyphant is a framework for scientific data analysis. It features a flexible plugin architecture allowing for the application in many different fields. For the analysis a graph of processing steps is constructed, that can be applied via the cli as well.
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We aim to develop a transformative computational method for automatic discovery of a set of dynamical rules that best captures both state transition and topological transformation in the data of spatio-temporal evolution of a complex network.
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pyMantis is a data-management system for (systems) biology build on the web2py framework. It features: tree based file explorer, relational db table wizzard with automated creation of user interfaces, internal and external access management, wiki, ..
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Experiment manager
Computer science experiment manager
experimaestro is an experiment manager, and is composed of (1) a job scheduler that handles dependencies and locking (2) a modular experiment description framework, that allows easy description of the various parts of an experiments. -
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BETR-Research (BETRS) is a modelling framework to create spatially resolved multimedia models for the environmental fate- and transport of chemical contaminants. It is intended to serve the research community and can be used as a teaching tool.
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BriCS
SaaS for running simulation models in the cloud
The Bristol Cloud Service simulation runner is a cloud computing Software as a Service designed to enable users to quickly launch simulation code on Amazon AWS' Elastic Compute Cloud (EC2). BRiCS is written in Python using the Django framework and interacts with EC2 using the boto API. BriCS enables multiple simulation runs to be launched in parallel from a web browser. Model configuration (parameters) files are uploaded via the browser and results files are downloadable on completion. BriCS enables researchers with software simulation models to access the rapid scale out opportunities of the cloud. ... -
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RESPOND-R
RESPOND-R Test Instrument
The RESPOND-R framework is a modular, distributed data logging framework built for the purpose of studying Emergency Informatics as it relates to human robot performance during disaster responses. Tutorials can be found on the wiki: https://sourceforge.net/p/respondr/wiki/ -
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ppc_sim_booke
e500v2 simulator
An experimental ISS for freescale's e500v2 core. It is meant to simulate only cpu and memory subsystem and is purely intended for academic/learning purposes only. -
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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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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 interactions, gene expression, disease-causing probabilities, genomic context). ... -
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CAMFR (CAvity Modelling FRamework) is a fast, flexible, friendly full-vectorial Maxwell solver. Although it can tackle general electromagnetic problems, its main focus is on applications in the field of photonics.
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OpenSQUID
Superconducting QUantum Interference Devices (SQUIDs) control software
OpenSQUID is a Python framework for the control of SQUID (superconducting quantum interference device) readout electronics. It currently supports the Star Cryoelectronics PCI-1000 electronics with PFL-100 and PFL-102 flux-locked loops. Simultaneous operation of both PFL-100s and PFL-102s from a single PCI-1000 is supported. More features are under development.
