Python Systems-biology Resources

Perspective-taking and Pragmatics for Generating Empathetic Responses Focused on Emotion Causes Official PyTorch implementation and EmoCause evaluatio

Current build status All platforms: Current release info Name Downloads Version Platforms Hapi - Hydrological library for Python Hapi is an open-sourc

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

Endpoints Quickest API builder in the West! Endpoints is a lightweight REST api framework written in python and used in multiple production systems th

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.

Demonstrate that UMAP and Leiden analysis is not reproducible between different cpu architectures.

MosaicML Composer contains a library of methods, and ways to compose them together for more efficient ML training.

Custom Selenium Chromedriver | Zero-Config | Passes ALL bot mitigation systems (like Distil / Imperva/ Datadadome / CloudFlare IUAM)

DaDRA (day-druh) is a Python library for Data-Driven Reachability Analysis. The main goal of the package is to accelerate the process of computing estimates of forward reachable sets for nonlinear dynamical systems.

1 Python for Power System Analysis Contents 1 Python for Power System Analysis 1.1 About 1.2 Documentation 1.3 Functionality 1.4 Example scripts as Ju

MosaicML Composer MosaicML Composer contains a library of methods, and ways to compose them together for more efficient ML training. We aim to ease th

Collaborative-driven Quantum Feature Selection This repository was developed by Riccardo Nembrini, PhD student at Politecnico di Milano. See the websi

CottonWeeds Deep learning models for classification of 15 common weeds in the southern U.S. cotton production systems. requirements pytorch torchsumma

Few-Shot Bot: Prompt-Based Learning for Dialogue Systems This repository includes the dataset, experiments results, and code for the paper: Few-Shot B

covert-tube A program to control systems remotely by uploading videos to Youtube using Python to create the videos and the listener, emulating some ma

Hydra: An Extensible Fuzzing Framework for Finding Semantic Bugs in File Systems Paper Finding Semantic Bugs in File Systems with an Extensible Fuzzin

pcnaDeep: a deep-learning based single-cell cycle profiler with PCNA signal Welcome! pcnaDeep integrates cutting-edge detection techniques with tracki

Control System Packer is a lightweight, low-level program to transform energy equations into the compact libraries for control systems. Packer supports Python 🐍 , C 💻 and C++ 💻 libraries.

Overview PowerGym is a Gym-like environment for Volt-Var control in power distribution systems. The Volt-Var control targets minimizing voltage violat

Code and dataset for the EMNLP 2021 Finding paper "Can NLI Models Verify QA Systems’ Predictions?"

Perspective-taking and Pragmatics for Generating Empathetic Responses Focused on Emotion Causes Official PyTorch implementation and EmoCause evaluatio

A ready-to-use curated list of Spectral Indices for Remote Sensing applications. GitHub: https://github.com/davemlz/awesome-ee-spectral-indices Docume

Voting This is a repository for voting software built using Choice Coin on the Algorand Network. Our voting software is centered around Decentralized

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 newly state-of-the-art recommendation models are implemented. QRec has a lightweight architecture and provides user-friendly interfaces. It can facilitate model implementation and evaluation.

SGLKT-VisDial Pytorch Implementation for the paper: Reasoning Visual Dialog with Sparse Graph Learning and Knowledge Transfer Gi-Cheon Kang, Junseok P

Embark is being developed to provide the firmware security analyzer emba as a containerized service and to ease accessibility to emba regardless of system and operating system.

A "gym" style toolkit for building lightweight Neural Architecture Search systems

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

ACSC Automatic extrinsic calibration for non-repetitive scanning solid-state LiDAR and camera systems. System Architecture 1. Dependency Tested with U

✨A collaborative music playing systems🎶 where multiple guests can join a room ➡🚪 and enjoy the song🎧 being played.

This project is a community effort in constructing and maintaining an up-to-date beginner-friendly introduction to AutoML, focusing on practical systems. AutoML is a big field, and continues to grow daily. Hence, we cannot hope to provide a comprehensive description of every interesting idea or approach available.

Proteno This is the data release associated with the corresponding NAACL 2021 Paper - Proteno: Text Normalization with Limited Data for Fast Deploymen

OpenCDA OpenCDA is a SIMULATION tool integrated with a prototype cooperative driving automation (CDA; see SAE J3216) pipeline as well as regular autom

TensorFlow Ranking is a library for Learning-to-Rank (LTR) techniques on the TensorFlow platform

Learning to Communicate with Deep Multi-Agent Reinforcement Learning This is a PyTorch implementation of the original Lua code release. Overview This

Monitor the status of computers on a network using the DDS function of ROS2.

Mava: a research framework for distributed multi-agent reinforcement learning Table of Contents Overview Getting Started Supported Environments System

This is my reading list for my PhD in AI, NLP, Deep Learning and more.

KCMTicketFormatter This tools takes the output from https://github.com/fireeye/SSSDKCMExtractor and turns it into properly formatted CCACHE files for

Dpex——用户无感知分布式数据预处理组件 一、前言 随着GPU与CPU的算力差距越来越大以及模型训练时的预处理Pipeline变得越来越复杂，CPU部分的数据预处理已经逐渐成为了模型训练的瓶颈所在，这导致单机的GPU配置的提升并不能带来期望的线性加速。预处理性能瓶颈的本质在于每个GPU能够使用的C

How Robust are Fact Checking Systems on Colloquial Claims? Official PyTorch implementation of our NAACL paper: Byeongchang Kim*, Hyunwoo Kim*, Seokhee

ASVspoof 2021 Baseline Systems Baseline systems are grouped by task: Speech Deepfake (DF) Logical Access (LA) Physical Access (PA) Please find more de

Recommendation systems are among most widely preffered marketing strategies. Their popularity comes from close prediction scores obtained from relationships of users and items. In this project, two recommendation systems are used for two different datasets: Association Recommendation Learning and Collaborative Filtering. Please read the description for more info.

FINN.no Recommender Systems Slate Dataset This repository accompany the paper "Dynamic Slate Recommendation with Gated Recurrent Units and Thompson Sa

What is being transferred in transfer learning? This repo contains the code for the following paper: Behnam Neyshabur*, Hanie Sedghi*, Chiyuan Zhang*.

LSO - Linux Swap Operator Türkçe - LSO Nedir? LSO, diğer adıyla Linux Swap Operator Linux işletim sistemleri için Swap alanını yönetebileceğiniz hem G

Intruder-Detection Intruder detection systems are common place now, and readily available in industry, but how do they work? They must detect people a

Fusion-DHL: WiFi, IMU, and Floorplan Fusion for Dense History of Locations in Indoor Environments Paper: arXiv (ICRA 2021) Video : https://youtu.be/CC

Action-Based Conversations Dataset (ABCD) This respository contains the code and data for ABCD (Chen et al., 2021) Introduction Whereas existing goal-

When2com: Multi-Agent Perception via Communication Graph Grouping This is the PyTorch implementation of our paper: When2com: Multi-Agent Perception vi

Collaborative Variational Bandwidth Auto-encoder The codes are associated with the following paper: Collaborative Variational Bandwidth Auto-encoder f

Asymmetric Tri-training for Debiasing Missing-Not-At-Random Explicit Feedback About This repository accompanies the real-world experiments conducted i

Stream Framework Activity Streams & Newsfeeds Stream Framework is a Python library which allows you to build activity streams & newsfeeds using Cassan

paper list in the area of reinforcenment learning for recommendation systems

Assessing Dialogue Systems with Distribution Distances [arXiv][code] We propose to measure the performance of a dialogue system by computing the distr

NVIDIA Merlin is an open source library providing end-to-end GPU-accelerated recommender systems, from feature engineering and preprocessing to training deep learning models and running inference in production.

The PyTorch-Kaldi Speech Recognition Toolkit PyTorch-Kaldi is an open-source repository for developing state-of-the-art DNN/HMM speech recognition sys

Texar-PyTorch is a toolkit aiming to support a broad set of machine learning, especially natural language processing and text generation tasks. Texar

Physics-Aware Training (PAT) is a method to train real physical systems with backpropagation. It was introduced in Wright, Logan G. & Onodera, Tatsuhiro et al. (2021)1 to train Physical Neural Networks (PNNs) - neural networks whose building blocks are physical systems.

Graph Evolving Meta-Learning for Low-resource Medical Dialogue Generation Code to be further cleaned... This repo contains the code of the following p

Structural basis for solubility in protein expression systems Large-scale protein production for biotechnology and biopharmaceutical applications rely

collie_recs Collie is a library for preparing, training, and evaluating implicit deep learning hybrid recommender systems, named after the Border Coll

This repository contains code to train and test GNN models for recommendation, mainly using the Deep Graph Library (DGL).

PwnLnX An advanced multi-threaded, multi-client python reverse shell for hacking linux systems. There's still more work to do so feel free to help out

LiuAlgoTrader is a scalable, multi-process ML-ready framework for effective algorithmic trading. The framework simplify development, testing, deployment, analysis and training algo trading strategies. The framework automatically analyzes trading sessions, and the analysis may be used to train predictive models.

Gaphor is a UML and SysML modeling application written in Python. It is designed to be easy to use, while still being powerful. Gaphor implements a fully-compliant UML 2 data model, so it is much more than a picture drawing tool. You can use Gaphor to quickly visualize different aspects of a system as well as create complete, highly complex models.

The SLIDE package contains the source code for reproducing the main experiments in this paper. Dataset The Datasets can be downloaded in Amazon-

pyproj Python interface to PROJ (cartographic projections and coordinate transformations library). Documentation Stable: http://pyproj4.github.io/pypr

PyTorch Implementation of Differentiable SDE Solvers This library provides stochastic differential equation (SDE) solvers with GPU support and efficie

Hivemind: decentralized deep learning in PyTorch Hivemind is a PyTorch library to train large neural networks across the Internet. Its intended usage

pyproj Python interface to PROJ (cartographic projections and coordinate transformations library). Documentation Stable: http://pyproj4.github.io/pypr

SPLASH: Semantic Parsing with Language Assistance from Humans SPLASH is dataset for the task of semantic parse correction with natural language feedba

capbot-siic Repository to hold code for the cap-bot varient that is being presented at the SIIC Defence Hackathon 2021. Problem Inspiration A plethora

Passive TCP/IP Fingerprinting This is a passive TCP/IP fingerprinting tool. Run this on your server and find out what operating systems your clients a

[ICLR 2021] "UMEC: Unified Model and Embedding Compression for Efficient Recommendation Systems" by Jiayi Shen, Haotao Wang*, Shupeng Gui*, Jianchao Tan, Zhangyang Wang, and Ji Liu

Gaphor Gaphor is a UML and SysML modeling application written in Python. It is designed to be easy to use, while still being powerful. Gaphor implemen

Oncall See admin docs for information on how to run and manage Oncall. Development setup Prerequisites Debian/Ubuntu - sudo apt-get install libsasl2-d

Glances - An eye on your system Summary Glances is a cross-platform monitoring tool which aims to present a large amount of monitoring information thr

Applied Reinforcement Learning @ Facebook Overview ReAgent is an open source end-to-end platform for applied reinforcement learning (RL) developed and

eXtreme Gradient Boosting Community | Documentation | Resources | Contributors | Release Notes XGBoost is an optimized distributed gradient boosting l

Gaphor Gaphor is a UML and SysML modeling application written in Python. It is designed to be easy to use, while still being powerful. Gaphor implemen

Py4J Py4J enables Python programs running in a Python interpreter to dynamically access Java objects in a Java Virtual Machine. Methods are called as

KStrike Stand-alone parser for User Access Logging from Server 2012 and newer systems BriMor Labs KStrike This script will parse data from the User Ac

Texar is a toolkit aiming to support a broad set of machine learning, especially natural language processing and text generation tasks. Texar provides

DeepPavlov is an open-source conversational AI library built on TensorFlow, Keras and PyTorch. DeepPavlov is designed for development of production re

Persine, the Persona Engine Persine is an automated tool to study and reverse-engineer algorithmic recommendation systems. It has a simple interface a

Texar is a toolkit aiming to support a broad set of machine learning, especially natural language processing and text generation tasks. Texar provides

DeepPavlov is an open-source conversational AI library built on TensorFlow, Keras and PyTorch. DeepPavlov is designed for development of production re

eXtreme Gradient Boosting Community | Documentation | Resources | Contributors | Release Notes XGBoost is an optimized distributed gradient boosting l

Glances - An eye on your system Summary Glances is a cross-platform monitoring tool which aims to present a large amount of monitoring information thr

GoAccess What is it? GoAccess is an open source real-time web log analyzer and interactive viewer that runs in a terminal on *nix systems or through y

OpenVINO Inference API This is a repository for an object detection inference API using the OpenVINO. It's supported on both Windows and Linux Operati

Overview Surprise is a Python scikit for building and analyzing recommender systems that deal with explicit rating data. Surprise was designed with th

DeepPavlov is an open-source conversational AI library built on TensorFlow, Keras and PyTorch. DeepPavlov is designed for development of production re

Cornac Cornac is a comparative framework for multimodal recommender systems. It focuses on making it convenient to work with models leveraging auxilia

Recommenders What's New (February 4, 2021) We have a new relase Recommenders 2021.2! It comes with lots of bug fixes, optimizations and 3 new algorith

eXtreme Gradient Boosting Community | Documentation | Resources | Contributors | Release Notes XGBoost is an optimized distributed gradient boosting l

The MicroPython project This is the MicroPython project, which aims to put an implementation of Python 3.x on microcontrollers and small embedded syst

Python Stream Processing Version: 1.10.4 Web: http://faust.readthedocs.io/ Download: http://pypi.org/project/faust Source: http://github.com/robinhood

Ansible Ansible is a radically simple IT automation system. It handles configuration management, application deployment, cloud provisioning, ad-hoc ta