Python Modelling-biological-systems Resources

jBrain Software associated with the AAAI 2022 paper Francesco D'Amore, Daniel Mitropolsky, Pierluigi Crescenzi, Emanuele Natale, Christos H. Papadimit

Introduction QRec is a Python framework for recommender systems (Supported by Python 3.7.4 and Tensorflow 1.14+) in which a number of influential and

Fine-grained Post-training for Multi-turn Response Selection Implements the model described in the following paper Fine-grained Post-training for Impr

Computational modelling of ray propagation through optical elements using the principles of geometric optics (Ray Tracer) Introduction By applying the

WideLinears Pytorch parallel Neural Networks A package of pytorch modules for fast paralellization of separate deep neural networks. Ideal for agent-b

SeqLike - flexible biological sequence objects in Python Introduction A single object API that makes working with biological sequences in Python more

rxn-aa-mapper Reactions SMILES-AA sequence mapping setup conda env create -f conda.yml conda activate rxn_aa_mapper In the following we consider on ex

BP-Transformer This repo contains the code for our paper BP-Transformer: Modeling Long-Range Context via Binary Partition Zihao Ye, Qipeng Guo, Quan G

PG-19 Language Modelling Benchmark This repository contains the PG-19 language modeling benchmark. It includes a set of books extracted from the Proje

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-

A python package that extends Google Earth Engine GitHub: https://github.com/davemlz/eemont Documentation: https://eemont.readthedocs.io/ PyPI: https:

Kinematic Bicycle Model Abstract A python library for the Kinematic Bicycle model. The Kinematic Bicycle is a compromise between the non-linear and li

CAT (Improving Machine Translation Systems via Isotopic Replacement) Machine translation plays an essential role in people’s daily international commu

iDracPowerMonitorMQTT This script publishes iDrac power draw data for iDrac 6 enabled servers to an MQTT broker. This can be used to integrate the pow

Self-Supervised Learning (SimCLR) with Biological Plausible Image Augmentations Official code base for the poster "On the use of Cortical Magnificatio

HETU Documentation | Examples Hetu is a high-performance distributed deep learning system targeting trillions of parameters DL model training, develop

FuxiCTR This repo is the community dev version of the official release at huawei-noah/benchmark/FuxiCTR. Click-through rate (CTR) prediction is an cri

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

A repository built on the Flow software package to explore cyber-security attacks on intelligent transportation systems.

Cylc: a workflow engine for cycling systems. Repository master branch: core meta-scheduler component of cylc-8 (in development); Repository 7.8.x branch: full cylc-7 system.

Jiminy is a fast and portable cross-platform open-source simulator for poly-articulated systems. It was built with two ideas in mind: provide a fast y

Knowledge Graph Embeddings and Chemical Effect Prediction, 2020. Scripts and outputs related to the paper Prediction of Adverse Biological Effects of

PixMix Introduction In real-world applications of machine learning, reliable and safe systems must consider measures of performance beyond standard te

Pachyderm: The Data Foundation for Machine Learning Pachyderm provides the data layer that allows machine learning teams to productionize and scale th

Complex Answer Generation For Conversational Search Systems. Code for Does Structure Matter? Leveraging Data-to-Text Generation for Answering Complex

Bayesian Deep Learning for Manufacturing 2.0 (dlmfg) Object Shape Error Response (OSER) Digital Lifecycle Management - In Process Quality Improvement

Adversarial Differentiable Data Augmentation This repository provides the official PyTorch implementation of the ICRA 2021 paper: Adversarial Differen

PyCellID (building...) Functions to analyze Cell-ID single-cell cytometry data using python language. Dependecies for this project. attrs(=21.1.0) fo

Unified Framework for Hydrology The Python package unifhy (Unified Framework for Hydrology) is a hydrological modelling framework which combines inter

recmetrics A python library of evalulation metrics and diagnostic tools for recommender systems. **This library is activly maintained. My goal is to c

TorchRec (Experimental Release) TorchRec is a PyTorch domain library built to provide common sparsity & parallelism primitives needed for large-scale

Off-Policy-2-Stage This repo provides a PyTorch implementation of the MovieLens experiments for the following paper: Off-policy Learning in Two-stage

Attractors A small module that provides functions and classes for very efficient simulation and rendering of iterated function systems; dynamical syst

EP2520_ACME_Project Repository for a project of the course EP2520 Building Networked Systems Security in Royal Institute of Technology (KTH), Stockhol

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

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

BEAR Overview This repository contains code associated with the preprint A generative nonparametric Bayesian model for whole genomes (2021), which pro

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

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

An example of a reproducible modelling project What are we doing? This example was created for the 2021 fall lecture series of Stanford's Center for O

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

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

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

Trans-Encoder: Unsupervised sentence-pair modelling through self- and mutual-distillations Code repo for paper Trans-Encoder: Unsupervised sentence-pa

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

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

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

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

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

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

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

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

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

StackNet This repository contains StackNet Meta modelling methodology (and software) which is part of my work as a PhD Student in the computer science

pygsflow pyGSFLOW is a python package to Create, Read, Write, Edit, and Visualize GSFLOW models API Documentation pyGSFLOW API documentation can be fo

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

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

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

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

DiffuseAnimals: Reaction-Diffusion Models for the Generation of Biological Patterns Introduction Reaction-diffusion equations can be utilized in order

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

Summer: compartmental disease modelling in Python Summer is a Python-based framework for the creation and execution of compartmental (or "state-based"

EDSR modelling A Github repository for deep-learning image enhancement, pore-network and continuum modelling from X-Ray Micro-CT images. The repositor

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

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

Git repositoty of the manuscript entitled Statistical quantification of confounding bias in predictive modelling by Tamas Spisak The manuscript descri

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

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

EV-charging-impact This repository contains the code that has been used for the Queue modelling for the paper "How will electric vehicles affect traff

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

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