Python Systems-biology-simulation Resources

ONE PIECE is a Japanese manga of great international success. The story turns inhabited in a fictional world, tells the adventures of a young man whose body gained rubber properties after accidentally eating a devil fruit (AKUMA NO MI).

JAX Gravity This repo contains a demo of how to use JAX to create a simple gravity simulation. It uses JAX's experimental ode package to solve the dif

Miniattack Simulate Attacks With Mininet And Hping3 It measures network load with bwm-ng when the net is under attack and plots the result. This demo

ReacNetGenerator An automatic reaction network generator for reactive molecular dynamics simulation. ReacNetGenerator: an automatic reaction network g

Convenient script for trading with python.

webapp-wordlists This repository contains wordlists for each versions of common web applications and content management systems (CMS). Each version co

Cooperative Driving Dataset (CODD) The Cooperative Driving dataset is a synthetic dataset generated using CARLA that contains lidar data from multiple

AugLiChem Welcome to AugLiChem! The augmentation library for chemical systems. This package supports augmentation for both crystaline and molecular sy

Across-animal odor decoding by probabilistic manifold alignment (NeurIPS 2021) This repository is the official implementation of aligned mixture of la

Removing Inter-Experimental Variability from Functional Data in Systems Neuroscience This repository is the official implementation of [https://www.bi

Hexlet Logs Demo Пререквизиты docker-compose python3 Учетка в DataDog Базовое понимание, что такое логи (можно почитать гайд

Step by step development of a vending coffee machine project, including tkinter, sqlite3, simulation, etc.

Verification of Monty Hall problem by experimental simulation. |中文|English| In the process of learning causal inference, I learned about the Monty Hal

PyMPDATA PyMPDATA is a high-performance Numba-accelerated Pythonic implementation of the MPDATA algorithm of Smolarkiewicz et al. used in geophysical

Long Expressive Memory for Sequence Modeling This repository contains the implementation to reproduce the numerical experiments of the paper Long Expr

RecList RecList Free software: MIT license Documentation: https://reclist.readthedocs.io. Overview RecList is an open source library providing behavio

Factorized Fourier Neural Operators This repository contains the code to reproduce the results in our NeurIPS 2021 ML4PS workshop paper, Factorized Fo

PENecro This project is based on "Enabling dynamic analysis of Legacy Embedded Systems in full emulated environment", published on hardwear.io USA 202

tmm_fast tmm_fast or transfer-matrix-method_fast is a lightweight package to speed up optical planar multilayer thin-film device computation. It is es

ltempy ltempy is a set of tools for Lorentz TEM data analysis, simulation, and presentation. Features Single Image Transport of Intensity Equation (SI

Emotional-Support-Conversation Copyright © 2021 CoAI Group, Tsinghua University. All rights reserved. Data and codes are for academic research use onl

IROS21 information To test the code and reproduce the experiments, follow the installation steps in Installation.md. Afterwards, follow the steps in E

outlook-automated-backup-control Backup monitoring on a mailbox: In this mailbox there will be backup logs. The identification will based on the follo

Problem statements on System Design and Software Architecture as part of Arpit's System Design Masterclass

osqueryIR osqueryIR is an artifact collection tool for Linux systems. It provides the following capabilities: Execute osquery SQL queries Collect file

NVTabular is a feature engineering and preprocessing library for tabular data designed to quickly and easily manipulate terabyte scale datasets used to train deep learning based recommender systems.

RecList is an open source library providing behavioral, "black-box" testing for recommender systems.

PowerGridworld provides users with a lightweight, modular, and customizable framework for creating power-systems-focused, multi-agent Gym environments that readily integrate with existing training frameworks for reinforcement learning (RL).

MultiModal-Collaborative (MMC) Learning Framework for integrating RGB and Thermal spectral modalities This is the official code for NeurIPS 2021 Machi

KML: A Machine Learning Framework for Operating Systems & Storage Systems Storage systems and their OS components are designed to accommodate a wide v

M2MeT challenge baseline -- AliMeeting This project provides the baseline system recipes for the ICASSP 2020 Multi-channel Multi-party Meeting Transcr

Welcome to AirSim AirSim is a simulator for drones, cars and more, built on Unreal Engine (we now also have an experimental Unity release). It is open

Robotics Toolbox for Python A Python implementation of the Robotics Toolbox for MATLAB® GitHub repository Documentation Wiki (examples and details) Sy

Emotion Recognition in Conversations Updates 🔥 🔥 🔥 Date Announcements 03/08/2021 🎆 🎆 We have released a new dataset M2H2: A Multimodal Multiparty

Fluid Simulation Usage Download this repo and store it in your computer. Open a terminal and go to the root directory of this folder. Make sure you ha

Welcome MICOM is a Python package for metabolic modeling of microbial communities currently developed in the Gibbons Lab at the Institute for Systems

cdist This is the community maintained fork of ungleich's cdist (after f061fb1). Work is split between three repositories: cdist - implementation of t

HSPICE can not perform Monte Carlo (MC) simulations while considering aging effects. I developed a python wrapper that automatically performs MC and aging simulations using HPSICE to save engineering hours.

tcaledger PVE with tcaledger app for payments and simulation of payment requests. The purpose of this API is to empower users to accept cryptocurrenci

Cellpose | A generalist algorithm for cell and nucleus segmentation. Cellpose was written by Carsen Stringer and Marius Pachitariu. To learn about Cel

This is a a CSMA/CA simulator written in Python based on simulator of the same type found the link https://github.com/StevenSLXie/CSMA-Simulator with

In this repository, the code to use Udacity's self driving car simulator as a testbed for training an autonomous car are provided.

Badtray This is a very simple self-hosted server to receive files from remote systems. This works similar to Bintray (RIP) and primarily designed to d

Ohm-s-Law-Visualizer It's an application to calculate I from v and r using Ohm's Law. It can also plot a graph between V vs I. Story I'm doing my Unde

Using Sampling to Estimate and Improve Performance of Automated Scoring Systems with Guarantees Implementation of the paper titled "Using Sampling to

Simulation Dataset for BBHnet NOTE: OLD README, UPDATE IN PROGRESS We generate simulation dataset to train BBHnet, our deep learning framework for det

CaloGAN Simulating 3D High Energy Particle Showers in Multi-Layer Electromagnetic Calorimeters with Generative Adversarial Networks. This repository c

Improved Adversarial Systems for 3D Object Generation and Reconstruction: This is a repository for the paper "Improved Adversarial Systems for 3D Obje

Location-Aware Generative Adversarial Networks (LAGAN) for Physics Synthesis This repository contains all the code used in L. de Oliveira (@lukedeo),

tree-SNE t-SNE and hierarchical clustering are popular methods of exploratory data analysis, particularly in biology. Building on recent advances in s

An experimental Python-to-C transpiler and domain specific language for embedded high-performance computing

The Python Control Systems Library is a Python module that implements basic operations for analysis and design of feedback control systems.

Vulkan Light Bakary MSU Graphics Group Student's Diploma Project Treefonov Andrey [GitHub] [LinkedIn] Project Goal The goal of the project is to imple

COVID-19-simulation Simulation of early COVID-19 using SIR model and variants (SEIR ...). Made by the Laboratory of Sustainable Life Assessment (GYRO)

A distributed, plug-n-play algorithm for multi-robot applications with a priori non-computable objective functions Kapoutsis, A.C., Chatzichristofis,

Scalable Intervention Target Estimation in Linear Models Implementation of the paper Scalable Intervention Target Estimation in Linear Models (NeurIPS

MuMMI RAS v0.1 Released: Nov 16, 2021 MuMMI RAS is the application component of the MuMMI framework developed to create large-scale ML-driven multisca

slim-python is a package to learn customized scoring systems for decision-making problems. These are simple decision aids that let users make yes-no p

Web service load balancing simulation experiment.

Daiho is a Script Developed with Python3. It gathers a total of 22 Discord tools (including a RAT, a Raid Tool, a Nuker Tool, a Token Grabberr, etc). It has a pleasant and intuitive interface to facilitate the use of all with help and explanations for each of them.

ICS-Visualizer is an interactive Industrial Control Systems (ICS) network graph that contains up-to-date ICS metadata (Name, company, port, user manua

scheil A Scheil-Gulliver simulation tool using pycalphad. import matplotlib.pyplot as plt from pycalphad import Database, variables as v from scheil i

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

pytools is an open source library containing general machine learning and visualisation utilities for reuse, including: Basic tools for API developmen

AutomaticUSnavigation Investigating automatic navigation towards standard US views integrating MARL with the virtual US environment developed in CT2US

Cellpose | A generalist algorithm for cell and nucleus segmentation. Cellpose was written by Carsen Stringer and Marius Pachitariu. To learn about Cel

Learning an Adaptive Meta Model-Generator for Incrementally Updating Recommender Systems This is our experimental code for RecSys 2021 paper "Learning

MultiModal-Collaborative (MMC) Learning Framework for integrating RGB and Thermal spectral modalities This is the official code for NeurIPS 2021 Machi

System Design Assignments The repository contains a set of problem statements around Software Architecture and System Design as conducted by Arpit's S

A small fun project to simulate Conway's Game of Life, created in Python. Conway's Game of Life simulates a grid of cells, where the state of each cell consists of whether the cell is alive or dead.

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.

FreeCAD InvGears workbench Current version 0.1.1 Overview The InvGears workbench allows the creation of gear systems. The gear generation algorithm is

AlphaFold Analyser This program produces high quality visualisations of predicted structures produced by AlphaFold. These visualisations allow the use

Autonomous Ground Vehicle Navigation and Control Simulation Examples in Python THIS PROJECT IS CURRENTLY A WORK IN PROGRESS AND THUS THIS REPOSITORY I

Almacenes Para clonar el Repositorio: Vaya a la terminal de Linux o Mac, o a la cmd en Windows y ejecute:

Payu Payu is a climate model workflow management tool for supercomputing environments. Payu is currently only configured for use on computing clusters

Documentation OWPHydroTools GitHub pages documentation Motivation We developed OWPHydroTools with data scientists in mind. We attempted to ensure the

What is autoRICEWQ? This project aims to be a handler for input creation and running of multiple RICEWQ simulations. What is RICEWQ? From the descript

Lutris Lutris helps you install and play video games from all eras and from most gaming systems. By leveraging and combining existing emulators, engin

Baselining, on steroids! Baseline is a cross-platform library and command-line utility that creates file-oriented baselines of your systems. The proje

ToeholdTools Category Status Repository Package Build Quality A library for the analysis of toehold switch riboregulators created by the iGEM team Cit

OpenBox Doc | OpenBox中文文档 OpenBox: Generalized and Efficient Blackbox Optimization System OpenBox is an efficient and generalized blackbox optimizatio

Reverse engineering recurrent neural networks with Jacobian switching linear dynamical systems This repository is the official implementation of Rever

Amortized Assimilation This repository contains a PyTorch implementation of the paper Learning to Assimilate in Chaotic Dynamical Systems. Abstract: T

Constructing Neural Network-Based Models for Simulating Dynamical Systems Note this repo is work in progress prior to reviewing This is a companion re

Transfer learning approach to bicycle sharing systems station location planning using OpenStreetMap Companion repository to the paper accepted at the

Agent-based model simulation for air quality and pandemic risk assessment in architectural spaces. User Guide archABM is a fast and open source agent-

covert-control Control systems remotely by uploading files to Google Drive, OneDrive, Youtube or Telegram using Python to create the files and the lis

Intelligent Systems Project In Python

Delayed Propagation Transformer: A Universal Computation Engine towards Practical Control in Cyber-Physical Systems Introduction Multi-agent control i

CovidTrack A Solution to ensure Crowd Management with Contactless and Safe systems. ML Model Mask Detection Social Distancing Detection Analytics Page

Table of contents Introduction Dataset Model & Metrics How to Run Quickstart Install Training Evaluation Detection DATA COMPETITION The COVID-19 pande

PYTHON-EXPLOITATION This is a repository filled with scripts that were made with Python, and designed to exploit computer systems. Networking tcp_clin

Roto-translated Local Coordinate Frames for Interacting Dynamical Systems Source code for Roto-translated Local Coordinate Frames for Interacting Dyna

pcnaDeep-napari A customized interface for single cell track visualisation based on pcnaDeep and napari. 👀 Under construction You can get test image

Package Delivery Rover 🚀 This project is a prototype of Self Driving Car. It's based on embedded systems, to meet the current requirement of delivery

MultiWOZ Context-to-Response Evaluation Standardized and easy to use Inform, Success, BLEU ~ See the paper ~ Easy-to-use scripts for standardized eval

Machine Learning Systems Design Read this booklet here. This booklet covers four main steps of designing a machine learning system: Project setup Data

Group members information Member 1: Lixue Liang Member 2: Yuet Lee Chan Member 3: Xinruo Zhang Member 4: Yifei Han User Manual Generate Attack Packets

AI Assistant for Building Reliable, High-performing and Fair Multilingual NLP Systems