78 Repositories
Python computational Libraries
Computational Xmas Tree lights!
Computational Xmas Tree This repo contains the code for the computational illumination of a Christmas Tree! It is based on the work by Matt Parker fro
Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.
Molecular Docking integrated in Jupyter Notebooks Description | Citation | Installation | Examples | Limitations | License Table of content Descriptio
GitHub repository for the ICLR Computational Geometry & Topology Challenge 2021
ICLR Computational Geometry & Topology Challenge 2022 Welcome to the ICLR 2022 Computational Geometry & Topology challenge 2022 --- by the ICLR 2022 W
DLO8012: Natural Language Processing & CSL804: Computational Lab - II Semester VIII
NATURAL-LANGUAGE-PROCESSING-AND-COMPUTATIONAL-LAB-II DLO8012: NLP & CSL804: CL-II [SEMESTER VIII] Syllabus NLP - Reference Books THE WALL MEGA SATISH
Implementation of GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation (ICLR 2022).
GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation [OpenReview] [arXiv] [Code] The official implementation of GeoDiff: A Geome
Self-Supervised Vision Transformers Learn Visual Concepts in Histopathology (LMRL Workshop, NeurIPS 2021)
Self-Supervised Vision Transformers Learn Visual Concepts in Histopathology Self-Supervised Vision Transformers Learn Visual Concepts in Histopatholog
Image-to-image regression with uncertainty quantification in PyTorch
Image-to-image regression with uncertainty quantification in PyTorch. Take any dataset and train a model to regress images to images with rigorous, distribution-free uncertainty quantification.
Computational inteligence project on faces in the wild dataset
Table of Contents The general idea How these scripts work? Loading data Needed modules and global variables Parsing the arrays in dataset Extracting a
WikiPron - a command-line tool and Python API for mining multilingual pronunciation data from Wiktionary
WikiPron WikiPron is a command-line tool and Python API for mining multilingual pronunciation data from Wiktionary, as well as a database of pronuncia
Source code related to the article submitted to the International Conference on Computational Science ICCS 2022 in London
POTHER: Patch-Voted Deep Learning-based Chest X-ray Bias Analysis for COVID-19 Detection Source code related to the article submitted to the Internati
CSPML (crystal structure prediction with machine learning-based element substitution)
CSPML (crystal structure prediction with machine learning-based element substitution) CSPML is a unique methodology for the crystal structure predicti
HistoKT: Cross Knowledge Transfer in Computational Pathology
HistoKT: Cross Knowledge Transfer in Computational Pathology Exciting News! HistoKT has been accepted to ICASSP 2022. HistoKT: Cross Knowledge Transfe
Contains modeling practice materials and homework for the Computational Neuroscience course at Okinawa Institute of Science and Technology
A310 Computational Neuroscience - Okinawa Institute of Science and Technology, 2022 This repository contains modeling practice materials and homework
TensorDebugger (TDB) is a visual debugger for deep learning. It extends TensorFlow with breakpoints + real-time visualization of the data flowing through the computational graph
TensorDebugger (TDB) is a visual debugger for deep learning. It extends TensorFlow (Google's Deep Learning framework) with breakpoints + real-time visualization of the data flowing through the computational graph.
Reading Group @mila-iqia on Computational Optimal Transport for Machine Learning Applications
Computational Optimal Transport for Machine Learning Reading Group Over the last few years, optimal transport (OT) has quickly become a central topic
Python implementation of 3D facial mesh exaggeration using the techniques described in the paper: Computational Caricaturization of Surfaces.
Python implementation of 3D facial mesh exaggeration using the techniques described in the paper: Computational Caricaturization of Surfaces.
A computational optimization project towards the goal of gerrymandering the results of a hypothetical election in the UK.
A computational optimization project towards the goal of gerrymandering the results of a hypothetical election in the UK.
Computational Pathology Toolbox developed by TIA Centre, University of Warwick.
TIA Toolbox Computational Pathology Toolbox developed at the TIA Centre Getting Started All Users This package is for those interested in digital path
Unsupervised text tokenizer focused on computational efficiency
YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)
Course on computational design, non-linear optimization, and dynamics of soft systems at UIUC.
Computational Design and Dynamics of Soft Systems · This is a repository that contains the source code for generating the lecture notes, handouts, exe
Neural network pruning for finding a sparse computational model for controlling a biological motor task.
MothPruning Scientific Overview Originally inspired by biological nervous systems, deep neural networks (DNNs) are powerful computational tools for mo
PyCharge is an open-source computational electrodynamics Python simulator
PyCharge PyCharge is an open-source computational electrodynamics Python simulator that can calculate the electromagnetic fields and potentials genera
pyiron - an integrated development environment (IDE) for computational materials science.
pyiron pyiron - an integrated development environment (IDE) for computational materials science. It combines several tools in a common platform: Atomi
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
NeoDTI NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions (Bioinformatics).
[PNAS2021] The neural architecture of language: Integrative modeling converges on predictive processing
The neural architecture of language: Integrative modeling converges on predictive processing Code accompanying the paper The neural architecture of la
A tool for calculating distortion parameters in coordination complexes.
OctaDist Octahedral distortion calculator: A tool for calculating distortion parameters in coordination complexes. https://octadist.github.io/ Registe
A pythonic interface to high-throughput virtual screening software
pyscreener A pythonic interface to high-throughput virtual screening software Overview This repository contains the source of pyscreener, both a libra
Computational Methods Course at UdeA. Forked and size reduced from:
Computational Methods for Physics & Astronomy Book version at: https://restrepo.github.io/ComputationalMethods by: Sebastian Bustamante 2014/2015 Dieg
Reference code for the paper "Cross-Camera Convolutional Color Constancy" (ICCV 2021)
Cross-Camera Convolutional Color Constancy, ICCV 2021 (Oral) Mahmoud Afifi1,2, Jonathan T. Barron2, Chloe LeGendre2, Yun-Ta Tsai2, and Francois Bleibe
Code for TIP 2017 paper --- Illumination Decomposition for Photograph with Multiple Light Sources.
Illumination_Decomposition Code for TIP 2017 paper --- Illumination Decomposition for Photograph with Multiple Light Sources. This code implements the
Computational modelling of ray propagation through optical elements using the principles of geometric optics (Ray Tracer)
Computational modelling of ray propagation through optical elements using the principles of geometric optics (Ray Tracer) Introduction By applying the
Flow is a computational framework for deep RL and control experiments for traffic microsimulation.
Flow Flow is a computational framework for deep RL and control experiments for traffic microsimulation. See our website for more information on the ap
A computational block to solve entity alignment over textual attributes in a knowledge graph creation pipeline.
How to apply? Create your config.ini file following the example provided in config.ini Choose one of the options below to run: Run with Python3 pip in
MDAnalysis is a Python library to analyze molecular dynamics simulations.
MDAnalysis Repository README [*] MDAnalysis is a Python library for the analysis of computer simulations of many-body systems at the molecular scale,
This repo contains the source code and a benchmark for predicting user's utilities with Machine Learning techniques for Computational Persuasion
Machine Learning for Argument-Based Computational Persuasion This repo contains the source code and a benchmark for predicting user's utilities with M
Tools for computational pathology
A toolkit for computational pathology and machine learning. View documentation Please cite our paper Installation There are several ways to install Pa
Rapid experimentation and scaling of deep learning models on molecular and crystal graphs.
LitMatter A template for rapid experimentation and scaling deep learning models on molecular and crystal graphs. How to use Clone this repository and
⚡ H2G-Net for Semantic Segmentation of Histopathological Images
H2G-Net This repository contains the code relevant for the proposed design H2G-Net, which was introduced in the manuscript "Hybrid guiding: A multi-re
[IEEE Transactions on Computational Imaging] Self-Gated Memory Recurrent Network for Efficient Scalable HDR Deghosting
Few-shot Deep HDR Deghosting This repository contains code and pretrained models for our paper: Self-Gated Memory Recurrent Network for Efficient Scal
A DSL for data-driven computational pipelines
"Dataflow variables are spectacularly expressive in concurrent programming" Henri E. Bal , Jennifer G. Steiner , Andrew S. Tanenbaum Quick overview Ne
Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks.
pyradiomics v3.0.1 Build Status Linux macOS Windows Radiomics feature extraction in Python This is an open-source python package for the extraction of
A high-performance topological machine learning toolbox in Python
giotto-tda is a high-performance topological machine learning toolbox in Python built on top of scikit-learn and is distributed under the G
Scheme for training and applying a label propagation framework
Factorisation-based Image Labelling Overview This is a scheme for training and applying the factorisation-based image labelling (FIL) framework. Some
BookNLP, a natural language processing pipeline for books
BookNLP BookNLP is a natural language processing pipeline that scales to books and other long documents (in English), including: Part-of-speech taggin
Learning infinite-resolution image processing with GAN and RL from unpaired image datasets, using a differentiable photo editing model.
Exposure: A White-Box Photo Post-Processing Framework ACM Transactions on Graphics (presented at SIGGRAPH 2018) Yuanming Hu1,2, Hao He1,2, Chenxi Xu1,
Code-free deep segmentation for computational pathology
NoCodeSeg: Deep segmentation made easy! This is the official repository for the manuscript "Code-free development and deployment of deep segmentation
StackNet is a computational, scalable and analytical Meta modelling framework
StackNet This repository contains StackNet Meta modelling methodology (and software) which is part of my work as a PhD Student in the computer science
nbsafety adds a layer of protection to computational notebooks by solving the stale dependency problem when executing cells out-of-order
nbsafety adds a layer of protection to computational notebooks by solving the stale dependency problem when executing cells out-of-order
Generate Gaussian 09 input files for the rotamers of an input compound.
Rotapy Purpose Generate Gaussian 09 input files for the rotamers of an input compound. Distance to the axis of rotation remains constant throughout th
Powerful, efficient particle trajectory analysis in scientific Python.
freud Overview The freud Python library provides a simple, flexible, powerful set of tools for analyzing trajectories obtained from molecular dynamics
This repository details the steps in creating a Part of Speech tagger using Trigram Hidden Markov Models and the Viterbi Algorithm without using external libraries.
POS-Tagger This repository details the creation of a Part-of-Speech tagger using Trigram Hidden Markov Models to predict word tags in a word sequence.
This package is a python library with tools for the Molecular Simulation - Software Gromos.
This package is a python library with tools for the Molecular Simulation - Software Gromos. It allows you to easily set up, manage and analyze simulations in python.
Python package provinding tools for artistic interactive applications using AI
Documentation redrawing Python package provinding tools for artistic interactive applications using AI Created by ReDrawing Campinas team for the Open
Differentiable Quantum Chemistry (only Differentiable Density Functional Theory and Hartree Fock at the moment)
DQC: Differentiable Quantum Chemistry Differentiable quantum chemistry package. Currently only support differentiable density functional theory (DFT)
Compares various time-series feature sets on computational performance, within-set structure, and between-set relationships.
feature-set-comp Compares various time-series feature sets on computational performance, within-set structure, and between-set relationships. Reposito
BioMASS - A Python Framework for Modeling and Analysis of Signaling Systems
Mathematical modeling is a powerful method for the analysis of complex biological systems. Although there are many researches devoted on produ
A Python framework for developing parallelized Computational Fluid Dynamics software to solve the hyperbolic 2D Euler equations on distributed, multi-block structured grids.
pyHype: Computational Fluid Dynamics in Python pyHype is a Python framework for developing parallelized Computational Fluid Dynamics software to solve
MaD GUI is a basis for graphical annotation and computational analysis of time series data.
MaD GUI Machine Learning and Data Analytics Graphical User Interface MaD GUI is a basis for graphical annotation and computational analysis of time se
Multimodal Descriptions of Social Concepts: Automatic Modeling and Detection of (Highly Abstract) Social Concepts evoked by Art Images
MUSCO - Multimodal Descriptions of Social Concepts Automatic Modeling of (Highly Abstract) Social Concepts evoked by Art Images This project aims to i
CS 506 - Computational Tools for Data Science
CS 506 - Computational Tools for Data Science Code, slides, and notes for Boston University CS506 Fall 2021 The Final Project Repository can be found
Python wrappers for external BART computational imaging tools and internal libraries
bartpy Python bindings for BART. Overview This repo contains code to generate an updated Python wrapper for the Berkeley Advance Reconstruction Toolbo
Natural language computational chemistry command line interface.
nlcc Install pip install nlcc Must have Open-AI Codex key: export OPENAI_API_KEY=your key here then nlcc key bindings ctrl-w copy to clipboard (Note
Molecular AutoEncoder in PyTorch
MolEncoder Molecular AutoEncoder in PyTorch Install $ git clone https://github.com/cxhernandez/molencoder.git && cd molencoder $ python setup.py insta
In this project we investigate the performance of the SetCon model on realistic video footage. Therefore, we implemented the model in PyTorch and tested the model on two example videos.
Contrastive Learning of Object Representations Supervisor: Prof. Dr. Gemma Roig Institutions: Goethe University CVAI - Computational Vision & Artifici
Main repository for the HackBio'2021 Virtual Internship Experience for #Team-Greider ❤️
Hello 🤟 #Team-Greider The team of 20 people for HackBio'2021 Virtual Bioinformatics Internship 💝 🖨️ 👨💻 HackBio: https://thehackbio.com 💬 Ask us
This repository contains the code, data, and models of the paper titled "XL-Sum: Large-Scale Multilingual Abstractive Summarization for 44 Languages" published in Findings of the Association for Computational Linguistics: ACL 2021.
XL-Sum This repository contains the code, data, and models of the paper titled "XL-Sum: Large-Scale Multilingual Abstractive Summarization for 44 Lang
This repository contains the code, data, and models of the paper titled "XL-Sum: Large-Scale Multilingual Abstractive Summarization for 44 Languages" published in Findings of the Association for Computational Linguistics: ACL 2021.
XL-Sum This repository contains the code, data, and models of the paper titled "XL-Sum: Large-Scale Multilingual Abstractive Summarization for 44 Lang
JittorVis is a deep neural network computational graph visualization library based on Jittor.
JittorVis - Visual understanding of deep learning model.
House-GAN++: Generative Adversarial Layout Refinement Network towards Intelligent Computational Agent for Professional Architects
House-GAN++ Code and instructions for our paper: House-GAN++: Generative Adversarial Layout Refinement Network towards Intelligent Computational Agent
A set of workflows for corpus building through OCR, post-correction and normalisation
PICCL: Philosophical Integrator of Computational and Corpus Libraries PICCL offers a workflow for corpus building and builds on a variety of tools. Th
ReproZip is a tool that simplifies the process of creating reproducible experiments from command-line executions, a frequently-used common denominator in computational science.
ReproZip ReproZip is a tool aimed at simplifying the process of creating reproducible experiments from command-line executions, a frequently-used comm
Unsupervised text tokenizer focused on computational efficiency
YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)
Beautiful visualizations of how language differs among document types.
Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t
Inner ear models for Python
cochlea cochlea is a collection of inner ear models. All models are easily accessible as Python functions. They take sound signal as input and return
Unsupervised text tokenizer focused on computational efficiency
YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)
Beautiful visualizations of how language differs among document types.
Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t
Colibri core is an NLP tool as well as a C++ and Python library for working with basic linguistic constructions such as n-grams and skipgrams (i.e patterns with one or more gaps, either of fixed or dynamic size) in a quick and memory-efficient way. At the core is the tool ``colibri-patternmodeller`` whi ch allows you to build, view, manipulate and query pattern models.
Colibri Core by Maarten van Gompel, [email protected], Radboud University Nijmegen Licensed under GPLv3 (See http://www.gnu.org/licenses/gpl-3.0.html
This is a Python binding to the tokenizer Ucto. Tokenisation is one of the first step in almost any Natural Language Processing task, yet it is not always as trivial a task as it appears to be. This binding makes the power of the ucto tokeniser available to Python. Ucto itself is regular-expression based, extensible, and advanced tokeniser written in C++ (http://ilk.uvt.nl/ucto).
Ucto for Python This is a Python binding to the tokeniser Ucto. Tokenisation is one of the first step in almost any Natural Language Processing task,