Search Results for "data analysis" - Page 15
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Showing 1174 open source projects for "data analysis"
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DIA-Umpire
Computational analysis pipeline for DIA proteomics data
Computational package for identification and quantitation analysis of mass spectrometry-based proteomics data using data independent acquisition (DIA) -
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...The new implemented units are then automatically integrated with the rest of the library. The base of available algorithms is steadily increasing and includes signal processing methods (Principal Component Analysis, Independent Component Analysis, Slow Feature Analysis), manifold learning methods ([Hessian] Locally Linear Embedding), several classifiers, probabilistic methods (Factor Analysis, RBM), data pre-processing methods, and many others.
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Bamformatics
Toolkit and GUI for sequencing data analysis
The Bamformatics project aims to provide a coherent and consistent approach to analysis of high-throughput sequencing data. Its toolkit includes, among others, programs to identify variants and to compute various types genomic tracks. It also provides a graphical user interface to facilitate general bioinformatic workflows. The project wiki contains further details. -
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Py3DN
Morphometric analysis and visualization of the 3D structure of neurons
...The application was developed in Python and uses Blender (an open source program) to produce detailed 3D representations of raw and processed data. Py3DN is described in the paper: Aguiar P et al, "Versatile morphometric analysis and visualization of the three-dimensional structure of neurons", Neuroinformatics, 2013, 11(4):393-403 doi: 10.1007/s12021-013-9188-z -
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IAP.G2P
IAP - the Integrated Analysis Pipeline
The Integrated Analysis Platform (IAP) has been designed and developed to support the analysis of large-scale image data sets of different camera systems. It aims in bridging different data domains and in integrating different approaches to data analysis and post-processing. -
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orbkit (Moved to Github)
A Modular Python Toolbox for Cross-Platform Post-Processing of Quantum
PLEASE NOTE ORBKIT HAS BEEN MOVED TO https://github.com/orbkit/orbkit orbkit is a parallel Python program package for post-processing wave function data extracted from output files of MOLPRO (Molden File Format), TURBOMOLE (AOMix file format), GAMESS-US, PROAIMS/AIMPAC (wfn/wfx file format), and Gaussian (Output File and Formatted Checkpoint File) output files. Futhermore, an interface to cclib, a parser for quantum chemical logfiles, is provided. If you use orbkit in your work,... -
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Copy Number Analysis for Targeted Resequencing (CONTRA) is a tool for copy number variation (CNV) detection for targeted resequencing data such as those from whole-exome capture data.
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CanReg5 (moved to Github)
Canreg5 is a software package for population based cancer registries
...It has modules to do: data entry, quality control, consistency checks and basic analysis of the data It was designed with an emphasis on user friendliness, it has a modern user interface and is easy to navigate. Is available in several languages. (English, French, Spanish, Portuguese, Russian, Turkish, Georgian, and Chinese.) -
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MCCCS
Multi Channel Classification and Clustering
Here we present an image-based Multi Channel Classification and Clustering System (MCCCS). It is an generalized, script-based classification system for processing various kinds of image data. Due to the modular design, individual processing-components can be easily adapted, extended or exchanged by own extensions. See project website for installation instructions. -
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BamBam
Tools for genomic analysis
BamBam includes numerous tools for analyzing DNA next-generation sequencing data. Tools are provided for calling SNPs and indels, identifying large scale deletions, tabulating counts of mapped reads, methylation analysis, and more. Depends on SAMtools (http://samtools.sourceforge.net/) and BAMtools (https://github.com/pezmaster31/bamtools). Also uses BioPerl, which is included in the download tarball. -
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xlsLib
C++/C library to construct Excel .xls files in code.
A multiplatform C++ library for dynamic generation of Excel .xls files containing multiple worksheets. Unlike .csv files, these can be directly opened by Excel and thus provide an excellent way to output large data sets that require further analysis. To see the latest changes, select "Files" and view the README text displayed at the bottom of that pane. IMPORTANT: Major changes are contained in the current SVN source. If you have time please try to use it or the xlslib-package-2.4.0b1.zip archive, and enter bug reports on any problems! ... -
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Tigris is an open source suite of classes and programs implemented in C++ for single particle electron microscopic image processing.
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CSV Transformer
transforms xml to csv
The CSV Transformer is a data processing tool which transforms .xml-Files to comma separated values. The CSV Transformer was created in a load and performance testing project, the use case was to be able to transform 2800 configuration files of a big banking application to a single .csv-File. With this single file it was possible to compare the whole configuration between two releases with the already available tool CSV Comparator. This enabled the team to verify if there were any... -
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Savuka-VirtualBox
Virtual Box VDI of SliTaz Linux with Savuka installed and configured
...Point to any data directory, folder name: DATA, select Auto-mount. Note: "Folder name" must be 'DATA' in all caps to link on boot Thats it! More Info: www.osmanbilsel.net www.paulnobrega.net -
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quickplot
interactive 2D plotter
Quickplot is a fast interactive 2D plotter with infinite zooming, value picking, pipe input, and unlimited plots displayed. Quickplot is meant for looking at your data quickly and of secondary importance is making static pictures of your data. -
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FieldTrip
The MATLAB software toolbox for MEG and EEG analysis
FieldTrip is the Matlab toolbox for EEG and MEG data. It includes algorithms for simple and advanced analysis, such as importing, preprocessing, time-frequency analysis, source reconstruction, statistical testing and connectivity analysis. -
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GSA-SNP is a gene set analysis software that can process SNP data as well as gene and haplotype data.
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Atlas is a suite of variant analysis tools specializing in the separation of true SNPs and insertions and deletions (indels) from sequencing and mapping errors in Whole Exome Capture Sequecing (WECS) data.
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owl reasoning over big biomedical data
A OWL reasoning framework for the analysis of big biomedical data
A general OWL reasoning framework for the analysis of big biomedical data and implement a MapReduce-based property chain reasoning prototype system. OWL reasoning method is ideally suitable for problems involved complex semantic associations because it is able to infer logical consequences based on a set of asserted rules or axioms. MapReduce framework isused to solve the problem of scalability. -
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API library call APPA109N.DLL
(retrieving data from Multimeter and sound measurement data)
This library (the DLL), to work with a multimeter APPA-109N through physical or virtual COM port over USB in OS NT/2000/2003/XP/Vista/7/8, designed for querying, reading and decoding data measurements APPA WinDMM100 protocol 95/98 and sound measurement data. DLL provides universal access for other applications, regardless of the language in the environment Win OS. DLL for use in their projects comply with the agreement on stdcall-calls. Type of calling convention is declared after the... -
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SPIW - Scanning Probe Image Wizard
Scanning Probe Image Wizard - MATLAB Toolbox
SPIW is a MATLAB toolbox, for automated processing of scanning probe microscope images. Tools are applicable to all SPM images, but the main focus is on images with atomic or molecular resolution. SPIW is primarily a MATLAB toolbox with functions designed to be called in a user's own script. SPIW also has a very basic GUI for browsing and exporting images. For information on SPIW's performance see our publication ( http://dx.doi.org/10.1063/1.4827076 ) in the Review of Scientific... -
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...NetLogo meets R: Linking agent-based models with a toolbox for their analysis. Environmental Modelling and Software, Volume 25, Issue 8: 972 - 974
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iMSAT represents a full update of the vcf2MSAT program. This command line python program allows for a user to use the polymorphism data generated using SAM- and BAM-tools and a .fasta alignment file to search for polymorphic microsatellite markers (MSATs or STRs). By identifying polymorphic makers, rather than simple repeat regions as previous programs have done, iMSAT greatly increases the speed at which polymorphic MSATs that can be identified -- saving researchers precious time and...
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IM-TORNADO
Illinois Mayo Taxonomy Operations for RNA Database Operations
IM-TORNADO HAS MOVED TO GITHUB: https://github.com/pjeraldo/imtornado2 Pipeline for analysis of paired-end 16S rDNA amplicon data. -
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riboFR-seq
A novel approach to linking 16S rRNA amplicon profiles to metagenomes
16S rRNA amplicon analysis and shotgun metagenome sequencing are two main culture-independent strategies to explore the genetic landscape of various microbial communities. Recently, numerous studies have employed these two approaches together, but downstream data analyses were performed separately, which always generated incongruent or conflict signals on both taxonomic and functional classifications.
