Python Computational-topology Resources

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

Molecular Docking integrated in Jupyter Notebooks Description | Citation | Installation | Examples | Limitations | License Table of content Descriptio

ICLR Computational Geometry & Topology Challenge 2022 Welcome to the ICLR 2022 Computational Geometry & Topology challenge 2022 --- by the ICLR 2022 W

NATURAL-LANGUAGE-PROCESSING-AND-COMPUTATIONAL-LAB-II DLO8012: NLP & CSL804: CL-II [SEMESTER VIII] Syllabus NLP - Reference Books THE WALL MEGA SATISH

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 Self-Supervised Vision Transformers Learn Visual Concepts in Histopatholog

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.

NATS-Bench: Benchmarking NAS Algorithms for Architecture Topology and Size Xuanyi Dong, Lu Liu, Katarzyna Musial, Bogdan Gabrys in IEEE Transactions o

Table of Contents The general idea How these scripts work? Loading data Needed modules and global variables Parsing the arrays in dataset Extracting a

Python project that aims to discover CDP neighbors and map their Layer-2 topology within a shareable medium like Visio or Draw.io.

WikiPron WikiPron is a command-line tool and Python API for mining multilingual pronunciation data from Wiktionary, as well as a database of pronuncia

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 is a unique methodology for the crystal structure predicti

HistoKT: Cross Knowledge Transfer in Computational Pathology Exciting News! HistoKT has been accepted to ICASSP 2022. HistoKT: Cross Knowledge Transfe

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 (Google's Deep Learning framework) with breakpoints + real-time visualization of the data flowing through the computational graph.

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.

A computational optimization project towards the goal of gerrymandering the results of a hypothetical election in the UK.

TIA Toolbox Computational Pathology Toolbox developed at the TIA Centre Getting Started All Users This package is for those interested in digital path

YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)

Computational Design and Dynamics of Soft Systems · This is a repository that contains the source code for generating the lecture notes, handouts, exe

MothPruning Scientific Overview Originally inspired by biological nervous systems, deep neural networks (DNNs) are powerful computational tools for mo

PyCharge PyCharge is an open-source computational electrodynamics Python simulator that can calculate the electromagnetic fields and potentials genera

pyiron pyiron - an integrated development environment (IDE) for computational materials science. It combines several tools in a common platform: Atomi

NeoDTI NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions (Bioinformatics).

The neural architecture of language: Integrative modeling converges on predictive processing Code accompanying the paper The neural architecture of la

pysal/spaghetti SPAtial GrapHs: nETworks, Topology, & Inference Spaghetti is an open-source Python library for the analysis of network-based spatial d

OctaDist Octahedral distortion calculator: A tool for calculating distortion parameters in coordination complexes. https://octadist.github.io/ Registe

pyscreener A pythonic interface to high-throughput virtual screening software Overview This repository contains the source of pyscreener, both a libra

Computational Methods for Physics & Astronomy Book version at: https://restrepo.github.io/ComputationalMethods by: Sebastian Bustamante 2014/2015 Dieg

Scatterbrained Decentralized Federated Learning Scatterbrained makes it easy to build federated learning systems. In addition to traditional federated

Cross-Camera Convolutional Color Constancy, ICCV 2021 (Oral) Mahmoud Afifi1,2, Jonathan T. Barron2, Chloe LeGendre2, Yun-Ta Tsai2, and Francois Bleibe

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) Introduction By applying the

Flow Flow is a computational framework for deep RL and control experiments for traffic microsimulation. See our website for more information on the ap

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

Scatterbrained Decentralized Federated Learning Scatterbrained makes it easy to build federated learning systems. In addition to traditional federated

MDAnalysis Repository README [*] MDAnalysis is a Python library for the analysis of computer simulations of many-body systems at the molecular scale,

Machine Learning for Argument-Based Computational Persuasion This repo contains the source code and a benchmark for predicting user's utilities with M

A toolkit for computational pathology and machine learning. View documentation Please cite our paper Installation There are several ways to install Pa

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 This repository contains the code relevant for the proposed design H2G-Net, which was introduced in the manuscript "Hybrid guiding: A multi-re

Self-Supervised Graph Representation Learning via Topology Transformations This repository is the official PyTorch implementation of the following pap

Topology-Imbalance Learning for Semi-Supervised Node Classification Introduction Code for NeurIPS 2021 paper "Topology-Imbalance Learning for Semi-Sup

Few-shot Deep HDR Deghosting This repository contains code and pretrained models for our paper: Self-Gated Memory Recurrent Network for Efficient Scal

"Dataflow variables are spectacularly expressive in concurrent programming" Henri E. Bal , Jennifer G. Steiner , Andrew S. Tanenbaum Quick overview Ne

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

giotto-tda is a high-performance topological machine learning toolbox in Python built on top of scikit-learn and is distributed under the G

Factorisation-based Image Labelling Overview This is a scheme for training and applying the factorisation-based image labelling (FIL) framework. Some

Python Blood Vessel Topology Analysis This repository is not being updated anymore. The new version of PyVesTo is called PyVaNe and is available at ht

BookNLP BookNLP is a natural language processing pipeline that scales to books and other long documents (in English), including: Part-of-speech taggin

Exposure: A White-Box Photo Post-Processing Framework ACM Transactions on Graphics (presented at SIGGRAPH 2018) Yuanming Hu1,2, Hao He1,2, Chenxi Xu1,

NoCodeSeg: Deep segmentation made easy! This is the official repository for the manuscript "Code-free development and deployment of deep segmentation

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

Rotapy Purpose Generate Gaussian 09 input files for the rotamers of an input compound. Distance to the axis of rotation remains constant throughout th

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

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. It allows you to easily set up, manage and analyze simulations in python.

Documentation redrawing Python package provinding tools for artistic interactive applications using AI Created by ReDrawing Campinas team for the Open

DQC: Differentiable Quantum Chemistry Differentiable quantum chemistry package. Currently only support differentiable density functional theory (DFT)

AMAZ3DSim AMAZ3DSim is a lightweight python-based 3D network multi-agent simulator. It uses a cell-based congestion model. It calculates risk, battery

feature-set-comp Compares various time-series feature sets on computational performance, within-set structure, and between-set relationships. Reposito

Mathematical modeling is a powerful method for the analysis of complex biological systems. Although there are many researches devoted on produ

pyHype: Computational Fluid Dynamics in Python pyHype is a Python framework for developing parallelized Computational Fluid Dynamics software to solve

MaD GUI Machine Learning and Data Analytics Graphical User Interface MaD GUI is a basis for graphical annotation and computational analysis of time se

MUSCO - Multimodal Descriptions of Social Concepts Automatic Modeling of (Highly Abstract) Social Concepts evoked by Art Images This project aims to i

Taichi TopOpt (Under Active Development) Intro A topology optimization framework written in Taichi programming language, which is embedded in Python.

CS 506 - Computational Tools for Data Science Code, slides, and notes for Boston University CS506 Fall 2021 The Final Project Repository can be found

CTR-GCN This repo is the official implementation for Channel-wise Topology Refinement Graph Convolution for Skeleton-Based Action Recognition. The pap

bartpy Python bindings for BART. Overview This repo contains code to generate an updated Python wrapper for the Berkeley Advance Reconstruction Toolbo

TearingNet: Point Cloud Autoencoder to Learn Topology-Friendly Representations Created by Jiahao Pang, Duanshun Li, and Dong Tian from InterDigital In

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

MolEncoder Molecular AutoEncoder in PyTorch Install $ git clone https://github.com/cxhernandez/molencoder.git && cd molencoder $ python setup.py insta

Contrastive Learning of Object Representations Supervisor: Prof. Dr. Gemma Roig Institutions: Goethe University CVAI - Computational Vision & Artifici

Hello 🤟 #Team-Greider The team of 20 people for HackBio'2021 Virtual Bioinformatics Internship 💝 🖨️ 👨‍💻 HackBio: https://thehackbio.com 💬 Ask us

README clDice - a Novel Topology-Preserving Loss Function for Tubular Structure Segmentation CVPR 2021 Authors: Suprosanna Shit and Johannes C. Paetzo

XL-Sum This repository contains the code, data, and models of the paper titled "XL-Sum: Large-Scale Multilingual Abstractive Summarization for 44 Lang

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 - Visual understanding of deep learning model.

House-GAN++ Code and instructions for our paper: House-GAN++: Generative Adversarial Layout Refinement Network towards Intelligent Computational Agent

Official repository for the ICLR 2021 paper Evaluating the Disentanglement of Deep Generative Models with Manifold Topology Sharon Zhou, Eric Zelikman

SMPLicit: Topology-aware Generative Model for Clothed People [Project] [arXiv] License Software Copyright License for non-commercial scientific resear

OSMnx OSMnx is a Python package that lets you download geospatial data from OpenStreetMap and model, project, visualize, and analyze real-world street

Scikit-TDA is a home for Topological Data Analysis Python libraries intended for non-topologists. This project aims to provide a curated library of TD

PICCL: Philosophical Integrator of Computational and Corpus Libraries PICCL offers a workflow for corpus building and builds on a variety of tools. Th

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

YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)

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

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

YouTokenToMe YouTokenToMe is an unsupervised text tokenizer focused on computational efficiency. It currently implements fast Byte Pair Encoding (BPE)

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 by Maarten van Gompel, [email protected], Radboud University Nijmegen Licensed under GPLv3 (See http://www.gnu.org/licenses/gpl-3.0.html

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,

Streamparse lets you run Python code against real-time streams of data via Apache Storm. With streamparse you can create Storm bolts and spouts in Pyt