Search Results for "python-4suite-xml" - Page 3
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Showing 107 open source projects for "python-4suite-xml"
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X-SOCS
X-ray Strain Orientation Calculation Software
The X-ray Strain Orientation Calculation Software (X-SOCS) is a user-friendly software, developed for automatic analysisof 5D sets of data recorded during continuous mapping measurements. X-SOCS aims at retrieving strain and tilt maps of nanostructures, films, surfaces or even embedded structures. For more information: http://scripts.iucr.org/cgi-bin/paper?S1600576714004506 To download the latest version of XSOCS (D. Naudet, T. Vincent, M.I. Richard, G. Chahine), follow the... -
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SmartRoot
Semi-automated root image analysis software
...The software supports a sampling-based analysis of root system images, in which detailed information is collected on a limited number of roots selected by the user according to specific research requirements. SmartRoot is an operating system independent freeware based on ImageJ and uses cross-platform standards (XML, SQL, Java) for communication with data analysis softwares. To cite us: Guillaume Lobet, Loïc Pagès and Xavier Draye. A Novel Image Analysis Toolbox Enabling Quantitative Analysis of Root System Architecture. 2011 Plant Physiology, Vol. 157 -
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CorNetMap
A tool for Gene Expression Correlation Network
Capabilities of CorNetMap: 1. Read data as tab-delimited text file. Can be used for analysis of any data set beyond gene expression. 2. Capable of both two-dimensional and multidimensional data analysis. 3. Calculate Pearson correlation and cross-correlation for analysis data with phase difference. 4. Generate correlation Heat-map and draws network map. 5. Save correlation data as text file. How to use and doccumentation:... -
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Ship Lock Scheduling
Scheduling lockages at ship locks with several parallel lock chambers
This Java software includes algorithms of combinatorical optimization for the NP-hard offline ship lock scheduling problem. Solutions and performed computations can be displayed graphically. Besides, there is a framework for generating test instances and running these in parallel, as well as R/JGR code for statistical evaluation. Some tools for estimating the quality of calculated solutions will be further improved. Initially the software was developed within a project of TU Berlin regarding... -
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Pyclamp
A Python package used to extract and analyse electrophysiological data
Pyclamp is Python package used to extract and analyse electrophysiological data. A graphical user interface has been developed to allow a user to run the pack- age without requiring any knowledge of Python code. Presently, Pyclamp is designed to perform very specific forms of analysis on evoked synaptic responses: Data analysis (under development) : This is a highly user-interactive en-vironment that can be used to discriminate synaptic events, obtain various measures of their kinetics and size, and output the results. ... -
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SampleSpecificDBGenerator
Generates custom UniProt-XML databases from RNA-Seq data
SampleSpecificDBGenerator is a program that takes RNA sequencing data analysis results and translates them into protein database entries that are appended to a UniProt-XML file. This XML is condensed, meaning that much of the extraneous author information in UniProt-XMLs is removed for faster search times in Morpheus. Please cite http://pubs.acs.org/doi/abs/10.1021/acs.jproteome.5b00817. -
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ExAM-Exome_Analysis_And_Mining
A whole exome sequencing analysis package and its graphical interface
During the past few years, whole exome sequencing has imposed itself for genetic research, largely due to its use for detection of causative mutations responsible for Mendelian disorders. As a consequence of their power and of the rapidly decreasing cost of these technologies, massive amount of exome sequencing data are generated and becoming available to a broadening community of scientists. However, these data remain difficult to analyze and interpret by the general scientific community,... -
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Python(x, y)
Scientific-oriented Python Distribution based on Qt and Spyder
Python(x,y) is a free scientific and engineering development software for numerical computations, data analysis and data visualization based on Python programming language, Qt graphical user interfaces and Spyder interactive scientific development environment. -
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idealpy is a set of python routines and objects for dealing with astronomical data analysis. At its heart, it tries to reproduce most of the core features provided by the IDL Astronomy User's Library.
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UV-CDAT
Ultrascale Visualization Climate Data Analysis Tools
Ultrascale Visualization Climate Data Analysis Tools (UV-CDAT), is a powerful and complete front-end to a rich set of visual-data exploration and analysis capabilities well suited for climate-data analysis problems. -
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Data analysis for ADEXL
Create Excel reports from results of Cadence ADE-XL simulations
*** Required files from "Excel COM API for Python" project *** The scripts allows post processing of data saved in CSV format from "Detail - Transposed" view of ADE-XL -
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This is a sophisticated & integrated simulation and analysis environment for dynamical systems models of physical systems (ODEs, DAEs, maps, and hybrid systems). It supports symbolic math, optimization, continuation, data analysis, biological apps...
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QuickNXS
Polarized ToF reflectivity raw data analysis tool
Data evaluation tool for the magnetism reflectometer at the spallation neutron source (BL-4A@SNS). Reads raw nexus files (HDF5) of histogrammed or event mode data to create reflectivity curves and 2D Q-maps. -
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SCaVis
Scientific Computation and Visualization Environment
SCaVis is an environment for scientific computation, data analysis and data visualization for scientists, engineers and students. The program is fully multiplatform (100% Java) and integrated with Java and a number of scripting languages: Jython (Python), Groovy, JRuby, BeanShell. SCaVis can be used to plot functions and data in 2D and 3D, perform statistical tests, data mining, numeric computations, function minimization, linear algebra, solving systems of linear and differential equations. Linear, non-linear and symbolic regression are also available. Elements of symbolic computations using Octave/Matlab scripting are supported. ... -
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iMir
Integrated pipeline for HT miRNA-Seq data analysis
Processing of smallRNA-Seq data to gather biologically relevant information requires application of multiple statistical and bioinformatics tools from different sources, each focusing on a specific step of the analysis pipeline. The analytical workflow can be challenging for the continuous interventions by the operator, a critical factor when large numbers of datasets need to be analyzed at once. To allow a flexible and comprehensive analysis of smallRNA-Seq data we designed a novel modular... -
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PRADA
PRADA : Pipeline for RNA-Sequencing Data Analysis
Massively parallel sequencing of cDNA reverse transcribed from RNA (RNASeq) provides an accurate estimate of the quantity and composition of mRNAs. To characterize the transcriptome through the analysis of RNA-seq data, we developed PRADA. PRADA focuses on the processing and analysis of gene expression estimates, supervised and unsupervised gene fusion identification, and supervised intragenic deletion identification. PRADA currently supports 7 modules to process and identify... -
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TrollEditor
Editor of virtual worlds.
...It is based on Ogre3D (graphics engine), Bullet (physics engine), PhysX (physics engine), OpenAL (3D sound and music), OpenCV (image analysis and camera model) and Boost (threading and python binding). It uses Python for scripting, as well as built in simple scripting language. Some features: - built in multiplayer - incorporating data from different sensors (IMU, AHRS, Razer Hydra) - image server/client - built in support for motion capture data analysis - path finding using data from physics engine (backwave propagation algorithm) - built in XML parser - graphical world editor - plugins system (C++) -
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ThermV
Comprehensive thermal analysis software package
...The modules for peak deconvolution, peak profile analysis and determination of Ea and lnA will be provided first. Full GUI will be provided in beta stage. Due to computational limitations, the code is partly programmed in Python and partly in R. Python code will eventually be fully integrated into GUI. R code might remain standalone, although it will be integrated to a highest possible degree. Distributed under GPL -
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Larch: Data Analysis for X-ray Spectra
Data Processing and Analysis for X-ray Spectroscopy and More
...Larch has been primarily developed for dealing with x-ray spectroscopic and scattering data, especially the kind of data collected at modern synchrotrons and x-ray sources. Larch is written in Python and relies heavily on the standard tools for scientific computing with Python (numpy, scipy, matplotlib, and h5py). -
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Pathomx
Workflow-based data analysis built on IPython
Pathomx is a workflow-based tool for the analysis and visualisation of experimental data. Initially created as a tool for metabolomic data analysis is has been extended and can now be used for any scientific and non-scientific data analysis. -
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SFrame is a C++ framework built around the ROOT libraries for analysing particle physics data. It gives a very high performance for processing data, by allowing the user to run his/her code on a distributed farm of machines.
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Grid3D Toolbox
3D grid toolbox for analysis of molecular simulations
...The generated density maps are saved in the Grid3D native .g3d format and can be visualized using a third party data visualization software. A converter from the .g3d format to .vti, an XML based format of the VTK library is provided with the "Grid3D Toolbox", so that the generated density maps can be visualized using the ParaView data analysis and visualization software (http://www.paraview.org). For more details read the upcoming publication in Faraday Discussions: FD169: Density based visualization for molecular simulation. -
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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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PythonStatsLab
A collection of useful statistical functions written in Python
There are functions for numerical integration of the standard normal probability distribution. They can be used to find probabilities, find z-alpha values, calculate confidence interval, etc. New functionality I wish to add are hypothesis testing and calculation of p-value, type I & II errors, etc. These functions would come in handy to anyone taking introductory or intermediate-level courses in probability, statistics and data analysis. There are several numerical integration techniques...