Search Results for "command line tools"
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Showing 28 open source projects for "command line tools"
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XMLTV 1.4.0
Utilities to obtain, generate, and post-process TV listings data
XMLTV is a suite of utilities to obtain, generate, and post-process TV listings data in XMLTV format. It provides tools to gather television listings, process listings data, and help organize TV viewing. -
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EEGLAB
EEGLAB is an open source signal processing environment
EEGLAB is an open source, MATLAB-based interactive environment for analyzing electrophysiological signals such as EEG and MEG. It incorporates powerful tools for data import, preprocessing, independent component analysis (ICA), time-frequency analysis, artifact rejection, and visualization—all within a GUI framework that also supports scripting and plugin extensions. EEGLAB is an open source signal processing environment for electrophysiological signals running on Matlab and Octave (command line only for Octave). ... -
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relax
Molecular dynamics by NMR data analysis
The software package 'relax' is designed for the study of molecular dynamics through the analysis of experimental NMR data. Organic molecules, proteins, RNA, DNA, sugars, and other biomolecules are all supported. It supports exponential curve fitting for the calculation of the R1 and R2 relaxation rates, calculation of the NOE, reduced spectral density mapping, the Lipari and Szabo model-free analysis, study of domain motions via the N-state model and frame order dynamics theories using... -
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NumeRe
Framework for numerical computations, data analysis and visualisation
Curve fitting | Data analysis | Plotting | Matrix operations | FFT | Extensible framework | Multiple file formats | Programmable | Open source | Free for everyone NumeRe: Framework for Numerical Computation is a numerical framework written for Microsoft Windows(R) and released under the GNU GPL v3 for solving and visualizing mathematical and physical problems numerically. Keep simple things simple: You want to plot a sine function? Just enter 'plot sin(x)'. You want to load some... -
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DocWire SDK
Award-winning modern data processing SDK in C++20
DocWire SDK, a standout C++20AI driven data processing tool, has received award from SourceForge and strong backing from Microsoft. It handles nearly 100 file types, empowering efficient text extraction, web data extraction, and document analysis. For businesses, the shift to DocWire SDK signifies a leap forward. It promises comprehensive document format support and the ability to extract valuable insights from email boxes, databases, and websites using cutting-edge AI. DocWire SDK aims to... -
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Wooey
A Django app that creates automatic web UIs for Python scripts
...Enable the easy wrapping of any program in simple python instead of having to use language specific to existing tools such as Galaxy. Enable fellow lab members with no command line experience to utilize python scripts. Autodocument workflows for data analysis (simple model saving). -
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MS-Helios
MS-Helios: A Circos wrapper to visualize multi-omic datasets
...To provide a more holistic view, we recently introduced circular proteome maps (CPMs). However, the CPM construction requires prior data transformation and extensive knowledge of the Perl-based tool, Circos. We present MS-Helios, an easy to use command line tool with multiple built-in data processing functions, allowing non-expert users to construct CPMs or in general terms circular plots with a non-genomic basis. MS-Helios automatically generates data and configuration files to create high quality and publishable circular plots with Circos. -
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PINCIS
PINCIS.pl is a Perl bioinf. script to analyze PICS data
PINCIS.pl (PIcs N-/C-terminal Inferred Substrates perl script) is a small, command line tool to designate and analyze PICS (Schilling et al., Nat. Protocols, 2011) data to gain the prime and non-prime site specificity of proteases. Thus, the script filters given peptide lists for library peptides (generated by the digestion protease in the proteomics workflow rather then the protease of interest) and prints out lists of inferred N- and C-terminal cleavage window extensions which can be concurrently used to generate cleavage specificity visualizations like the iceLogo (https://iomics.ugent.be/icelogoserver/create). -
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TSA_CRAFT
Automatic command line tool for TSA data analysis
DSF is a high-throughput platform of TSA assay to screen various conditions that affect protein stability. To facilitate TSA data analysis, we developed an automatic tool "TSA-CRAFT". TSA-CRAFT was developed by integrating PERL script and Gnuplot. PERL scripts manage the entire workflow and data processing procedures of TSA data analysis. On the other hand, Gnuplot takes over the curve fitting and result presentation works. All analysed results are coded in an html file that can be easily... -
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HBS-tools
a set of tools for hairpin bisulfite-seq data analysis
The emerging genome-wide hairpin bisulfite sequencing technique facilitates the determination of DNA methylation fidelity and accurate methylation calling. Here we present HBS analyzer, the first command line based open-source tool to process genome-wide hairpin bisulfite sequencing data. It accepts Illumina paired-end sequencing reads as input, performs alignment to recover the original (pre-bisulfite-converted) DNA sequences and calls methylation status for cytosines on both DNA strands. -
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Perl OBD-II Logger
A Perl program for logging OBD-II PID data
The goal of the Perl OBD-II Logger project is to create a flexible and efficient application that can capture and log OBD-II Mode 0x01 PID data from an automotive scantool. It is designed with accurate and efficient PID data logging in mind, and provides NO support for reading or resetting diagnostic trouble codes. By default, the output log file contains time-stamped PID values in a simple Comma Separated Values (CSV) format that can be readily imported into popular data analysis or... -
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A More Accurate Fourier Transform
Computes Accurate Fourier Transform via Explicit Integration not FFT
...It has been shown recently that EI methods can be more accurate than FFT methods (Courtney and Courtney, A More Accurate Fourier Transform) for scientific data analysis and that EI methods can be implemented in reasonable times with modern computing power. This project makes the source code (and command line Windows executable) developed in that study openly available for scientific and engineering uses. -
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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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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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Larch: Data Analysis for X-ray Spectra
Data Processing and Analysis for X-ray Spectroscopy and More
Larch is a scientific data processing language that is designed to be easy to use for novices and complete enough for advanced data processing and analysis. Larch provides a wide range of functionality for dealing with arrays of scientific data, and basic tools to make it easy to use and organize complex data. 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. ... -
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A collection of code, bundled into a single R package, to perform several aspects of data management, image pre-processing, data analysis and statistical inference related to the quantitative analysis of dynamic contrast-enhanced MRI (DCE-MRI).
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KeplerDB
Timeseries databases management system
KeplerDB is a temporal database to store time/value entries where the type of value could be integer, float/double, boolean and string. KeplerDB is dedicated to be scalable and to create clusters of server allowing the user to analyse and store massing amount of data to monitor systems like computers, clusters, building and captors or financial systems like markets and accounts. The user can use KeplerDB to make data analysis on enormous amount of data (statistics and modelling). -
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Grid3D Toolbox
3D grid toolbox for analysis of molecular simulations
"Grid3D Toolbox" is a set of command line tools for visualization and analysis of the results of molecular simulations based on 3-dimensional density maps (grids). Currently, the tools only work with the simulation trajectories generated by the GROMACS simulation package (http://www.gromacs.org/). The generated density maps are saved in the Grid3D native .g3d format and can be visualized using a third party data visualization software. -
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Framework for text mining, data integration and data analysis. Keywords: ontology and graph alignment, relation mining, warehouse, semantic database integration, bioinformatics, systems biology, microarray, Java.
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The pySpec project is a set of data analysis routines written in python for analysis of x-ray diffraction data produced by the SPEC X-Ray Diffraction and Data Acquisition software. This repo has moved to : https://github.com/stuwilkins/pyspec
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Sorting Algorithms
Searching and Sorting algorithms
Selection Sort, Quick Sort, Merge Sort, etc Data analysis and efficiency. -
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Import width files into MySQL, manipulate and export back to fixed width. Useful for health data analysis or *whatever*. Includes Thompson Reuters Care Discovery 3000 data file definition. Windows, OS X, Linux Requires PHP 5.3.x and MySQL 5.1.x
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BIL++ is a set of standalone C++ packages for data processing in Bioinformatics (Graph mining, Bayesian networks, Genetic algorithm, Discretization, Gene expression data analysis, Hypothesis testing).
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LaCor is intended for physical data analysis in High Energy Physics field. It was originally designed to aid in lambda hyperon correlations research in the Selex@FNAL experiment, but it should be useful for similar studies.
