Search Results for "data capture framework" - Page 2
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Showing 53 open source projects for "data capture framework"
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PyRate
Bayesian Estimation of Speciation and Extinction from Fossil Data
PyRate is a Python program to estimate speciation, extinction, and preservation rates from fossil occurrence data using a Bayesian framework. The method was described by D Silvestro, J Schnitzler, LH Liow, A Antonelli, and N Salamin in Systematic Biology (http://sysbio.oxfordjournals.org/content/early/2014/02/08/sysbio.syu006.abstract). *Please download the most up-to-date code from the "PyRate code" tab on this page or from: https://github.com/dsilvestro/PyRate * *An updated manual can be found here: https://github.com/dsilvestro/PyRate/tree/master/tutorials * -
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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. ... -
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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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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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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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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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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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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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ROOTlib
C++ lib, that provides access to multiple ROOT routines (root.cern.ch)
This C++ lib is used and created to provide easy methods based on ROOT (a CERN data analysis framework). It was developed for use in practical courses but is not limited to. In addition it is ported step by step into Python. -
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CoNIFER
Homepage for CoNIFER (Copy Number Inference From Exome Reads)
CoNIFER uses exome sequencing data to find copy number variants (CNVs) and genotype the copy-number of duplicated genes. -
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Cca-forum unifies the Common Component Architecture tools and tutorial. It includes the CCA specifications, the Ccaffeine framework for HPC, and related tools. These support multilanguage scientific and parallel computing.
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General purpose discrete event simulation (DES) framework for the Python programming language. Khronos gathers ideas from other simulation software and tries to provide a simple and poweful toolset for simulation of discrete systems.
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PyQwt = FAST and EASY data plotting for Numerical Python and PyQt. PyQwt is a Python wrapper for the Qwt C++ class library which extends the Qt framework with widgets to display and control data for scientific and engineering applications. Please note: We moved RCS, future releases, BUGS to https://github.com/PyQwt
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A collection of tools for working with the comparative data analysis ontology including import/export facilities for common phylogenetic file formats, and also a triple-store framework.
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Shared Substance is a programming framework and middleware for developing distributed interactive application. The environment written in Python, operating on the data-oriented programming model.
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Use SASSIE to generate and manipulate large numbers of molecular structures and then calculate the SAXS, SANS, and neutron reflectivity profiles from atomistic structures. Use for intrinsically disordered proteins. We need alpha-testers and developers.
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MIVF - Medical Imaging and Visualization Factory, is a framework for medical applications. It supplies a platform, in which image processing and 3D visualization algorithms can be employed as reusable components (functional modules or plugins).
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PGAF provides a framework tuned, user-specific genetic algorithms by handling I/O, UI, and parallelism. It is designed for optimizing functions that take a "very long time" to evaluate.
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A lightweight, browsing-based, 100% Python, federated data integration framework. Users may create custom schemas for disparate sources, query and expand results across sources to find related data; for use in fields such as bioinformatics and datamining
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QuickDicom is an easy to use dicom medical imaging package for Mac OSX, providing QuickLook, Spotlight, Quartz Composer, Window/Level and a dicom file analyzer. Also included is the iiDicom Framework for image/dictionary usage in Objective C and Python.
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Mind this project is no longer maintained. You might be interested in having a look at http://pythonhosted.org/plasduino/ instead. Framework for data acquisition through the parallel port, suitable for performing simple didactic physics experiment.
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The LuSeismo project provides modules for the Earthworm project to capture analog seismometer data w/linux. The project also provides GUI interfaces used in the Loyola Physics Department for several labs, utilizing these seismometers as educational tools
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openGPR is a framework for the management, processing and 2D/3D-visualization of ground penetrating radar (GPR, georadar) data. It interoperates with existing tools like Seismic Unix, with a special focus on georadar applications.
