Python Scientific-publications Resources

Scientific Programming: A Crash Course Welcome to the Scientific Programming course. My name is Jon Carr and I am a postdoc in Davide Crepaldi's lab.

Citation Intent Classification Table of Contents About the Project Built With Installation Usage Acknowledgments About The Project Citation Intent Cla

The GT4SD (Generative Toolkit for Scientific Discovery) is an open-source platform to accelerate hypothesis generation in the scientific discovery process. It provides a library for making state-of-the-art generative AI models easier to use.

Poor man's simple harvester for arXiv resources This modest Python script takes

A set of Python codes for the generation of biomedical ontologies from the MeSH keywords of the PubMed scholarly publications

Introduction This code is the implementation of the paper "Coherence-Based Distributed Document Representation Learning for Scientific Documents". If

Free Unified Rendering in Python A software library for scientific visualization in Python. General Information • Key Features • Installation • How to

Welcome to ruptures ruptures is a Python library for off-line change point detection. This package provides methods for the analysis and segmentation

FElupe - Finite Element Analysis FElupe is a Python 3.6+ finite element analysis package focussing on the formulation and numerical solution of nonlin

Data and extra materials for the food safety publications classifier The subdirectories contain detailed descriptions of their contents in the README.

opt-einsum-torch There have been many implementations of Einstein's summation. numpy's numpy.einsum is the least efficient one as it only runs in sing

PyMeasure scientific package PyMeasure makes scientific measurements easy to set up and run. The package contains a repository of instrument classes a

harold A control systems package for Python=3.6. Introduction This package is written with the ambition of providing a full-fledged control systems s

OpenQuake Engine The OpenQuake Engine is an open source application that allows users to compute seismic hazard and seismic risk of earthquakes on a g

discretisedfield Marijan Beg1,2, Martin Lang2, Samuel Holt3, Ryan A. Pepper4, Hans Fangohr2,5,6 1 Department of Earth Science and Engineering, Imperia

A Boilerplate repo for Scientific Python Open Science projects Installation Clone this repo If you need a fresh python environment, run $ conda env cr

TenSIR Parameter estimation on epidemic data under the SIR model using a novel algorithm for differentiated uniformization of Markov transition rate m

SciPy SciPy (pronounced "Sigh Pie") is an open-source software for mathematics, science, and engineering. It includes modules for statistics, optimiza

Time_Calculator_freeCodeCamp freeCodeCamp Scientific Computing with Python Project for Certification. Write a function named add_time that takes in tw

Polygon_Area_Calculator freeCodeCamp Python Project freeCodeCamp Scientific Computing with Python Project for Certification. In this project you will

Scripted visualizations in blender The goal of this project is to script 3D scientific visualizations using blender. To achieve this, we aim to bring

Notice: Support for Python 3.6 will be dropped in v.0.2.1, please plan accordingly! Efficient and Scalable Physics-Informed Deep Learning Collocation-

NeuralPDE NeuralPDE.jl is a solver package which consists of neural network solvers for partial differential equations using scientific machine learni

Simulation and Parameter Estimation in Geophysics - A python package for simulation and gradient based parameter estimation in the context of geophysical applications.

The yt Project yt is an open-source, permissively-licensed Python library for analyzing and visualizing volumetric data. yt supports structured, varia

notion-scholar Reference management solution using Python and Notion. The main idea of this app is to allow to furnish a Notion database using a BibTe

NumPy is the fundamental package needed for scientific computing with Python. Website: https://www.numpy.org Documentation: https://numpy.org/doc Mail

TUEplots Plot-configurations for scientific publications, purely based on matplotlib. Usage Please have a look at the examples in the example/ directo

LaTeX Paper Linter This script checks for common mistakes in LaTeX source files of scientific papers. Usage python3 paperlint.py file.tex [-i/x inc

scholarpy A python package for searching journal publications and researchers Free software: MIT license Documentation: https://giswqs.github.io/schol

Fast implementation of the MuyGPs Gaussian process hyperparameter estimation algorithm MuyGPs is a GP estimation method that affords fast hyperparamet

Impyute is a library of missing data imputation algorithms. This library was designed to be super lightweight, here's a sneak peak at what impyute can do.

PyEMD: Fast EMD for Python PyEMD is a Python wrapper for Ofir Pele and Michael Werman's implementation of the Earth Mover's Distance that allows it to

Python+Numpy+OpenGL: fast, scalable and beautiful scientific visualization

Colorcet: Collection of perceptually uniform colormaps Build Status Coverage Latest dev release Latest release Docs What is it? Colorcet is a collecti

Scikit-Garden or skgarden (pronounced as skarden) is a garden for Scikit-Learn compatible decision trees and forests.

Overview of OpenPNM OpenPNM is a comprehensive framework for performing pore network simulations of porous materials. More Information For more detail

AI-powered literature discovery and review engine for medical/scientific papers paperai is an AI-powered literature discovery and review engine for me

kwd-extraction-study This repository is maintained for the scientific paper tittled " Study of keyword extraction techniques for Electric Double Layer

An open access book on scientific visualization using python and matplotlib

JIGSAW: An unstructured mesh generator JIGSAW is an unstructured mesh generator and tessellation library; designed to generate high-quality triangulat

MetPy MetPy is a collection of tools in Python for reading, visualizing and performing calculations with weather data. MetPy follows semantic versioni

freud Overview The freud Python library provides a simple, flexible, powerful set of tools for analyzing trajectories obtained from molecular dynamics

Agroforestry Species Switchboard 2.0 Scraper Scrape plants scientific name information from Species Switchboard 2.0. Requirements python = 3.10 (you

A lightweight and powerful python module for scientific analysis and visualization of 3d objects.

Assignment Write a function named add_time that takes in two required parameters and one optional parameter: a start time in the 12-hour clock format

DeepMind Research This repository contains implementations and illustrative code to accompany DeepMind publications. Along with publishing papers to a

EarthGAN - Earth Mantle Surrogate Modeling Can a surrogate model of the Earth’s Mantle Convection data set be built such that it can be readily run in

Auto-Research A no-code utility to generate a detailed well-cited survey with topic clustered sections (draft paper format) and other interesting arti

fisher_py This Python module allows access to Thermo Orbitrap raw mass spectrometer files. Using this library makes it possible to automate the analys

SCICAP: Scientific Figures Dataset This is the Github repo of the EMNLP 2021 Findings' paper, SCICAP: Generating Captions for Scientific Figures (Hsu

xitorch: differentiable scientific computing library xitorch is a PyTorch-based library of differentiable functions and functionals that can be widely

DeepXDE Voting on whether we should have a Slack channel for discussion. DeepXDE is a library for scientific machine learning. Use DeepXDE if you need

AICSImageIO Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Pure Python Features Supports reading metadata and imaging

Glue Glue is a python project to link visualizations of scientific datasets across many files. Click on the image for a quick demo: Features Interacti

SciBERT is a BERT model trained on scientific text.

EasyBuild is a software build and installation framework that allows you to manage (scientific) software on High Performance Computing (HPC) systems in an efficient way.

Open Data Cube Core Overview The Open Data Cube Core provides an integrated gridded data analysis environment for decades of analysis ready earth obse

Toolchest Python Client Toolchest provides APIs for scientific and bioinformatic data analysis. It allows you to abstract away the costliness of runni

Sci - cpy README is a stub. Do expand it. Objective This repository is meant to be a ready reference for scientific computation methods. Do ⭐ it if yo

Scientific Computational Imaging COde (SCICO) SCICO is a Python package for solving the inverse problems that arise in scientific imaging applications

Scitizen - Help scientific research for the benefit of mankind and humanity 🔬 Scitizen has been built from the ground up to give everyone the possibi

Deep Learning for Physical Processes: Integrating Prior Scientific Knowledge: Official Pytorch implementation of ICLR 2018 paper Deep Learning for Phy

TableMASTER-mmocr Contents About The Project Method Description Dependency Getting Started Prerequisites Installation Usage Data preprocess Train Infe

IDRLnet IDRLnet is a machine learning library on top of PyTorch. Use IDRLnet if you need a machine learning library that solves both forward and inver

About DRIFT is a tool for Diachronic Analysis of Scientific Literature. The application offers user-friendly and customizable utilities for two modes:

Scicomap is a package that provides scientific color maps and tools to standardize your favourite color maps if you don't like the built-in ones. Scicomap currently provides sequential, bi-sequential, diverging, circular, qualitative and miscellaneous color maps. You can easily draw examples, compare the rendering, see how colorblind people will perceive the color maps. I will illustrate the scicomap capabilities below.

Repository of conference publications and source code for first-/ second-authored papers published at NeurIPS, ICML, and ICLR.

Bag of tricks for long-tailed visual recognition with deep convolutional neural networks This repository is the official PyTorch implementation of AAA

Pyodide may be used in any context where you want to run Python inside a web browser.

SkipGNN: Predicting Molecular Interactions with Skip-Graph Networks Molecular interaction networks are powerful resources for the discovery. While dee

xitorch is a PyTorch-based library of differentiable functions and functionals that can be widely used in scientific computing applications as well as deep learning.

monolish is a linear equation solver library that monolithically fuses variable data type, matrix structures, matrix data format, vendor specific data transfer APIs, and vendor specific numerical algebra libraries.

ArrayFire is a general-purpose library that simplifies the process of developing software that targets parallel and massively-parallel architectures i

PyCUDA lets you access Nvidia's CUDA parallel computation API from Python. Several wrappers of the CUDA API already exist-so what's so special about P

GROBID GROBID documentation Visit the GROBID documentation for more detailed information. Summary GROBID (or Grobid, but not GroBid nor GroBiD) means

Spack Spack is a multi-platform package manager that builds and installs multiple versions and configurations of software. It works on Linux, macOS, a

Scikit-Optimize Scikit-Optimize, or skopt, is a simple and efficient library to minimize (very) expensive and noisy black-box functions. It implements

pyGAM Generalized Additive Models in Python. Documentation Official pyGAM Documentation: Read the Docs Building interpretable models with Generalized

Veusz 3.3.1 Veusz is a scientific plotting package. It is designed to produce publication-ready PDF or SVG output. Graphs are built-up by combining pl

Spack Spack is a multi-platform package manager that builds and installs multiple versions and configurations of software. It works on Linux, macOS, a

ReproZip ReproZip is a tool aimed at simplifying the process of creating reproducible experiments from command-line executions, a frequently-used comm

Mayavi: 3D visualization of scientific data in Python Mayavi docs: http://docs.enthought.com/mayavi/mayavi/ TVTK docs: http://docs.enthought.com/mayav

an interactive explorer for single-cell transcriptomics data cellxgene (pronounced "cell-by-gene") is an interactive data explorer for single-cell tra

This repository contains custom pipes and models related to using spaCy for scientific documents. In particular, there is a custom tokenizer that adds

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

MDCT A fast MDCT implementation using SciPy and FFTs Installation As usual pip install mdct Dependencies NumPy SciPy STFT Usage import mdct spectrum

This repository contains custom pipes and models related to using spaCy for scientific documents. In particular, there is a custom tokenizer that adds

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

Spyder is a powerful scientific environment written in Python, for Python, and designed by and for scientists, engineers and data analysts. It offers a unique combination of the advanced editing, analysis, debugging, and profiling functionality of a comprehensive development tool with the data exploration, interactive execution, deep inspection, and beautiful visualization capabilities of a scientific package.

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

Crab - A Recommendation Engine library for Python Crab is a flexible, fast recommender engine for Python that integrates classic information filtering r

pyglet pyglet is a cross-platform windowing and multimedia library for Python, intended for developing games and other visually rich applications. It

Copyright © 2009–2021 Spyder Project Contributors Some source files and icons may be under other authorship/licenses; see NOTICE.txt. Project status B