Search Results for "hpc code analysis"
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Showing 67 open source projects for "hpc code analysis"
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Perceval
An open source framework for programming photonic quantum computers
An open-source framework for programming photonic quantum computers. Through a simple object-oriented Python API, Perceval provides tools for composing circuits from linear optical components, defining single-photon sources, manipulating Fock states, running simulations, reproducing published experimental papers and experimenting with a new generation of quantum algorithms. It aims to be a companion tool for developing photonic circuits – for simulating and optimizing their design, modeling... -
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Cookiecutter Data Science
Project structure for doing and sharing data science work
A logical, reasonably standardized, but flexible project structure for doing and sharing data science work. When we think about data analysis, we often think just about the resulting reports, insights, or visualizations. While these end products are generally the main event, it's easy to focus on making the products look nice and ignore the quality of the code that generates them. Because these end products are created programmatically, code quality is still important! ... -
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Vedo
A python module for scientific analysis of 3D data
A lightweight and powerful python module for scientific analysis and visualization of 3d objects. Inspired by the vpython manifesto "3D programming for ordinary mortals", vedo makes it easy to work with 3D pointclouds, meshes and volumes, in just a few lines of code, even for less experienced programmers. vedo is based on VTK and numpy, with no other dependencies. Import meshes from VTK format, STL, Wavefront OBJ, 3DS, Dolfin-XML, Neutral, GMSH, OFF, PCD (PointCloud). ... -
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Code_TYMPAN
Open source software calculating industrial noise in the environment
...Find useful resources in External Link : - Source Code, - User Documentation, - Developer Documentation, - DefaultSolver Note, - 9613Solver Note. -
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Claude Scientific Skills
A set of ready to use Agent Skills for research, science, engineering
Claude Scientific Skills is a large open source collection of ready-to-use scientific capabilities that extend AI coding agents into full research assistants. The project provides more than 170 curated skills covering domains such as genomics, drug discovery, medical imaging, physics, and advanced data analysis. Each skill bundles documentation, examples, and tool integrations so agents can reliably execute complex multi-step scientific workflows. The framework follows the open Agent Skills standard and works with multiple AI development environments including Claude Code, Cursor, and Codex. Its primary goal is to reduce the friction of scientific computing by giving AI agents structured access to specialized libraries, databases, and research pipelines. ... -
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PySchool
Installable / Portable Python Distribution for Everyone.
PySchool is a free and open-source Python distribution intended primarily for students who learn Python and data analysis, but it can also used by scientists, engineering, and data scientists. It includes more than 150 Python packages (full edition) including numpy, pandas, scipy, sympy, keras, scikit-learn, matplotlib, seaborn, beautifulsoup4... -
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BioXTAS RAW
Processing and analysis of Small Angle X-ray Scattering (SAXS) data.
BioXTAS RAW is a program for analysis of Small-Angle X-ray Scattering (SAXS) data. The software enables: creation of 1D scattering profiles from 2D detector images, standard data operations such as averaging and subtraction, analysis of radius of gyration (Rg) and molecular weight, and advanced analysis using GNOM and DAMMIF as well as electron density reconstructions using DENSS. -
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Uranie
Uranie is CEA's uncertainty analysis platform, based on ROOT
Uranie is a sensitivity and uncertainty analysis plateform based on the ROOT framework (http://root.cern.ch) . It is developed at CEA, the French Atomic Energy Commission (http://www.cea.fr). It provides various tools for: - data analysis - sampling - statistical modeling - optimisation - sensitivity analysis - uncertainty analysis - running code on high performance computers - etc. -
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DAE Tools Project
Object-oriented equation-based modelling and optimisation software
...It is not a modelling language nor a collection of numerical libraries but rather a higher level structure – an architectural design of interdependent software components providing an API for: - Model development/specification - Activities on developed models, such as simulation, optimisation, sensitivity analysis and parameter estimation - Processing of the results, such as plotting and exporting to various file formats - Report generation - Code generation, co-simulation and model exchange The following class of problems can be solved by DAE Tools: - Initial value problems of implicit form - Index-1 DAE systems - With lumped or distributed parameters - Steady-state or dynamic - Continuous with some elements of event-driven systems -
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CAMPARI
Software for molecular simulations and trajectory analysis
We are proud to introduce version 5 of CAMPARI. We have added a number of new features, most notably a Python interface for interpreting user-supplied code (with the help of ForPy), a novel trajectory storage standard (with the help of libpqxx/PostgreSQL), and a module for performing transition path theory. Naturally, CAMPARI continues to provide the reference implementation of the ABSINTH force field paradigm and implicit solvation model. CAMPARI is a joint package for performing and... -
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SPPAS
SPPAS - the automatic annotation and analyses of speech
SPPAS is a scientific computer software package written and maintained by Brigitte Bigi of the Laboratoire Parole et Langage, in Aix-en-Provence, France. Available for free, with open source code, there is simply no other package for linguists to simple use in the automatic annotations of speech, the analyses of any kind of annotated data and the conversion of annotated files. SPPAS is able to produce automatically speech annotations from a recorded speech sound and its orthographic transcription. SPPAS is helpful for the analysis of any annotated data: estimate statistical distributions, make requests, manage files, visualize annotations. ... -
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rx2fits
HF/VHF spectrosopy code for the rx888mk2 direct-sampling receiver
rx2fits is an SDR code for the rx888mk2 direct-sampling receiver that streams spectral data with frequency up to 65 MHz to FITS files. This code is for the direct-sampling input of the receiver, which transmits real samples over USB3 at up to 130 MHz sample rate. rx2fits processes these samples to spectral intensities via a Fourier-transform poly-phase filter bank, which provides spectral resolution approaching the spectral bin width with good stop-band and adjacent-channel rejection. ... -
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LabRPS
Random phenomena generator
This is an official mirror of LabRPS. Code and release files are primarily hosted on https://github.com/LabRPS/LabRPS and mirrored here LabRPS aims to be a tool for the numerical simulation of random phenomena such as stochastic wind velocity, seismic ground motion, sea surface ... etc. It can be in a wide range of uses around engineering, such as random vibration or vibration fatigue in mechanical engineering, buffeting analysis in bridge engineering.... -
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GrainSizeTools script
A Python script for estimating the grain size from thin sections
...The script requires as the input the areas of the grain profiles measured grain-by-grain on planar sections and does not require previous experience with Python programming language (see documentation below and FAQ). For users with coding skills, the script is organized in a modular way facilitating the reuse and code extension. Lopez-Sanchez, MA (2018). GrainSizeTools: a Python script for grain size analysis and paleopiezometry based on grain size. Journal of Open Source Software, 3(30), 863, https://doi.org/10.21105/joss.00863 -
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Argo
ARGO is a program for analysis of electronic structure calculations
The `Argo' program draws its name from ancient Greek, referencing the vessel of the same name commissioned for Jason's renowned Argonauts expedition. This choice symbolizes the pursuit of making the best use of quantum chemical calculation results. ARGO facilitates the analysis of results obtained from quantum chemistry codes, specifically Gaussian. This task is achieved through a set of Python scripts. Our code is freely available throughout the academic community with the ambition to be used, to be supplemented by others, and become an indispensable tool for optimum utilization of quantum chemical calculation results. -
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GXSM
Scanning Probe Microscopy Controller and Data Visualization Software
GXSM -- Gnome X Scanning Microscopy: A multi-channel image and vector-probe data acquisition and visualization system designed for SPM techniques (STM,AFM..), but also SPA-LEED/LEED/LEEM data analysis. A plug-in interface allows any user add-on data-processing and special hardware and instrument support. Latest: NC-AFM and related explorative methods as SQDM can be configured. High-Speed external PAC-PLL hardware option with digital DSP link. Based on several hardware options it supports a commercially available DSP hardware and provided also Open Source Code for all the low level signal processing tasks and instrument controls in a most flexible and adaptable manner. ... -
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TheoDORE
Theoretical Density, Orbital Relaxation and Exciton analysis
The TheoDORE (Theoretical Density, Orbital Relaxation and Exciton analysis) package is a general purpose program suite for the analysis of excited states obtained from quantum chemical excited state calculations. Wavefunction analysis is based on state and transition density matrices, which provides a unified formalism applicable independent of the wavefunction model. TheoDORE is interfaced to a number of quantum chemical programs (Q-Chem, Columbus, Turbomole, ...) and can be used for a wide range of excited state methods (MR-CI, ADC, CC, TDDFT). ... -
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MAGeCK
Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout
Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology. For instructions and documentations, please refer to the wiki page. MAGeCK is developed by Wei Li and Han Xu from Dr. Xiaole Shirley Liu's lab at Dana-Farber Cancer Institute/Harvard School of Public Health, and is maintained by Wei Li lab at Children's National Medical Center. We thank the support... -
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LP CSIC/UAB Apps and Code
Software and Code from Laboratori de Proteòmica CSIC/UAB
Software, Code and Documents from Laboratori de Proteòmica CSIC/UAB ( LP-CSIC/UAB: http://proteomica.uab.cat ) -
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aseryla
Aseryla code repositories
This project describes a model of how the semantic human memory represents the information relevant to the objects of the world in text format. It provides a system and a GUI application capable of extracting and managing concepts and relations from English texts. https://aseryla2.sourceforge.io/ -
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TA-Lib.git: Technical Analysis Library
Mirror of the TA-Lib project using a Git repository
This project is intended to provide Git access to the code of the original project, TA-Lib, which uses Subversion. It is intended for system integrators wishing to use TA-Lib in their Git-managed project through Git submodules or subtrees. No actual development is being done here; all development happens in the original project. -
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DCT
Diffraction Contrast Tomography analysis code
Diffraction contrast tomography code base, as developed by researchers from beamline ID19 of the ESRF, Grenoble, France, and Manchester University, UK. -
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MToolBox
A bioinformatics pipeline to analyze mtDNA from NGS data
...MToolBox includes an updated computational strategy to assemble mitochondrial genomes from Whole Exome and/or Genome Sequencing (PMID: 22669646) and an improved fragment-classify tool (PMID:22139932) for haplogroup assignment, functional and prioritization analysis of mitochondrial variants. MToolBox provides pathogenicity scores, profiles of genome variability and disease-associations for mitochondrial variants. MToolBox provides also a Variant Call Format file (version 4.0) featuring, for the first time, allele-specific heteroplasmy. Please, check out the most recent updates of the source code with the Github repository of MToolBox: https://github.com/mitoNGS/MToolBox or visit the Web version of MToolBox @ MSeqDR: https://mseqdr.org/mtoolbox.php -
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The Development System for Auditory Modelling (DSAM) is a computational library designed specifically for producing simulations of the auditory system. It brings together many established auditory models within a flexible programming platform.
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Python4Proteomics Course
Python course for Proteomics analysis
Python course (in Spanish) for Proteomics analysis using basically Jupyter NoteBooks. For more information, you can have a look at the readme.md file in the source code tree: https://sourceforge.net/p/lp-csic-uab/p4p/code/ci/default/tree/readme.md
