Python Biomedical-data-science Resources

Centroid UNet - Locating Object Centroids in Aerial/Serial Images Introduction Centroid-UNet is deep neural network model to detect centroids from Aer

BiCAT This is our TensorFlow implementation for the paper: "BiCAT: Sequential Recommendation with Bidirectional Chronological Augmentation of Transfor

datamodel-code-generator This code generator creates pydantic model from an openapi file and others. Help See documentation for more details. Supporte

Wooey is a simple web interface to run command line Python scripts. Think of it as an easy way to get your scripts up on the web for routine data anal

RDFLib RDFLib is a pure Python package for working with RDF. RDFLib contains most things you need to work with RDF, including: parsers and serializers

aiortc What is aiortc? aiortc is a library for Web Real-Time Communication (WebRTC) and Object Real-Time Communication (ORTC) in Python. It is built o

Titanic-data-analysis This Repo is an analysis on Titanic_mod.csv This csv file contains some assumed data of the Titanic ship after sinking This full

The Python-Weather-App is a service that provides weather data, including current weather data to the developers of web services and mobile applications.

# microsoft azure # https://docs.microsoft.com/en-us/cli/azure/install-azure-cli az account set --subscription [] az aks get-credentials --resource-g

Easy-ERA5-Trck Easy-ERA5-Trck Galleries Install Usage Repository Structure Module Files Version iteration Easy-ERA5-Trck is a super lightweight Lagran

maup maup is the geospatial toolkit for redistricting data. The package streamlines the basic workflows that arise when working with blocks, precincts

Delta Sharing: An Open Protocol for Secure Data Sharing Delta Sharing is an open protocol for secure real-time exchange of large datasets, which enabl

PyIOmica (pyiomica) This repository contains PyIOmica, a Python package that provides bioinformatics utilities for analyzing (dynamic) omics datasets.

Package Description Status PyNHD Navigate and subset NHDPlus (MR and HR) using web services Py3DEP Access topographic data through National Map's 3DEP

Random database/dataframe generator Authored and maintained by Dr. Tirthajyoti Sarkar, Fremont, USA Introduction Often, beginners in SQL or data scien

flywheel-connect A 3D Slicer Extension to view, select, and download images from a Flywheel instance to 3D Slicer and storing Slicer outputs back to F

Streaming multipart/form-data parser streaming_form_data provides a Python parser for parsing multipart/form-data input chunks (the encoding used when

pythonwhois A WHOIS retrieval and parsing library for Python. Dependencies None! All you need is the Python standard library. Instructions The manual

Libextract is a statistics-enabled data extraction library that works on HTML and XML documents and written in Python

Pyrsistent Pyrsistent is a number of persistent collections (by some referred to as functional data structures). Persistent in the sense that they are

sqlitedict -- persistent dict, backed-up by SQLite and pickle A lightweight wrapper around Python's sqlite3 database with a simple, Pythonic dict-like

An OrderedSet is a mutable data structure that is a hybrid of a list and a set. It remembers the order of its entries, and every entry has an index nu

Links Documentation PyPI GitHub Changelog Issues Contributors If you enjoy anytree Getting started Usage is simple. Construction from anytree impo

A JSON-friendly data structure which allows both object attributes and dictionary keys and values to be used simultaneously and interchangeably.

This is an implementation of PEP 557, Data Classes. It is a backport for Python 3.6. Because dataclasses will be included in Python 3.7, any discussio

Facebook AI Image Similarity Challenge: Matching Track —— Team: imgFp This is the source code of our 3rd place solution to matching track of Image Sim

Microsoft Azure provides a wide number of services for managing and storing data. One product is Microsoft Azure SQL. Which gives us the capability to create and manage instances of SQL Servers hosted in the cloud. This project, demonstrates how to use these services to manage data we collect from different sources.

Data-Analysis-Report Deployed App 1. What is this app? Upload an excel/csv file and produce a summary report of the data. 2. Where to upload? How to p

easyNeuron is a simple way to create powerful machine learning models, analyze data and research cutting-edge AI.

Search for files under the specified directory. Extract the file name and file path and import them as data. Based on that, search for the file, select it and open it.

pandas-gbq pandas-gbq is a package providing an interface to the Google BigQuery API from pandas Installation Install latest release version via conda

smart_open — utils for streaming large files in Python What? smart_open is a Python 3 library for efficient streaming of very large files from/to stor

Programmatically Build and Manage Training Data Announcement The Snorkel team is now focusing their efforts on Snorkel Flow, an end-to-end AI applicat

pandas-datareader Up to date remote data access for pandas, works for multiple versions of pandas. Installation Install using pip pip install pandas-d

Singer is an open source standard for moving data between databases, web APIs, files, queues, and just about anything else you can think of. Th

An Open Source Project from the Data to AI Lab, at MIT Website: https://sdv.dev Documentation: https://sdv.dev/SDV User Guides Developer Guides Github

deepdish Flexible HDF5 saving/loading and other data science tools from the University of Chicago. This repository also host a Deep Learning blog: htt

tabulator-py A library for reading and writing tabular data (csv/xls/json/etc). [Important Notice] We have released Frictionless Framework. This frame

rows No matter in which format your tabular data is: rows will import it, automatically detect types and give you high-level Python objects so you can

datatest: Test driven data-wrangling and data validation Datatest helps to speed up and formalize data-wrangling and data validation tasks. It impleme

Parsing for messy tables A library for dealing with messy tabular data in several formats, guessing types and detecting headers. See the documentation

pyexcel-xlsx - Let you focus on data, instead of xlsx format pyexcel-xlsx is a tiny wrapper library to read, manipulate and write data in xlsx and xls

Excalibur: A web interface to extract tabular data from PDFs Excalibur is a web interface to extract tabular data from PDFs, written in Python 3! It i

DeepDiff v 5.6.0 DeepDiff Overview DeepDiff: Deep Difference of dictionaries, iterables, strings and other objects. It will recursively look for all t

Welcome to fastcore Python goodies to make your coding faster, easier, and more maintainable Python is a powerful, dynamic language. Rather than bake

Sound Field Analysis toolbox for Python The sound_field_analysis toolbox (short: sfa) is a Python port of the Sound Field Analysis Toolbox (SOFiA) too

charts.css.py charts.css.py provides a python API to convert your 2-dimension data lists into html snippet, which will be rendered into charts by CSS,

Dashboard For The DexConnect Platform of Dexterity Global Working prototype submission for internship at Dexterity Global Group. Dashboard for real ti

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

Larch: Data Analysis Tools for X-ray Spectroscopy and More Documentation: http://xraypy.github.io/xraylarch Code: http://github.com/xraypy/xraylarch L

COVID-19-Greece A python-generated website for visualizing the novel coronavirus (COVID-19) data for Greece. Data sources Data provided by Johns Hopki

Self-Supervised Image Denoising via Iterative Data Refinement Yi Zhang1, Dasong Li1, Ka Lung Law2, Xiaogang Wang1, Hongwei Qin2, Hongsheng Li1 1CUHK-S

EfficientZero (NeurIPS 2021) Open-source codebase for EfficientZero, from "Mastering Atari Games with Limited Data" at NeurIPS 2021. Environments Effi

Passax EDUCATIONAL PURPOSES ONLY Python3 library that can retrieve Chrome-based browser's saved login info. Requirements secretstorage~=3.3.1 pywin32=

UNLIMITED README for the Unlimited game [Mining game] Explore the docs » View Demo · Report Bug · Request Feature Table of Contents About The Project

This is a Python script that given a whole corpus of job descriptions and a file with keywords it extracts the number of number of ocurrences of these keywords and write it to a file. This script it is easy to extend to accept more functionalities

Kodi Oz Weather weather.ozweather Script for Kodi for high quality Australian weather data sourced directly from the BOM. Available from the Kodi offi

Misty2py Misty2py is a Python 3 package for Misty II development using Misty's REST API. Read the full documentation here! Installation Poetry To inst

Imagine by Reasoning: A Reasoning-Based Implicit Semantic Data Augmentation for Long-Tailed Classification (AAAI 2022) Prerequisite PyTorch = 1.2.0 P

BT-Unet: A-Self-supervised-learning-framework-for-biomedical-image-segmentation-using-Barlow-Twins Deep learning has brought most profound contributio

Evaluating saliency methods on artificial data with different background types This repository contains the relevant code for the MedNeurips 2021 subm

ScisorWiz: Vizualizer for Differential Isoform Expression README ScisorWiz is a linux-based R-package for visualizing differential isoform expression

Deep Learning Dataset Maker Deep Learning Datasets Maker is a QGIS plugin to make datasets creation easier for raster and vector data. How to use Down

AW-t-SNE The test data, code and result of the AW t-SNE algorithm Structure of the folder Datasets: This folder contains two datasets, the MNIST datas

Translates LinkML schemas into Datalog programs and executes them using Souffle, enabling advanced validation and inference over instance data

No non-sense and no BS repo for how data structure code should be in Python - simple and elegant.

A curated list of references for MLOps

This is a quick-and-dirty tool used to scrape bitcoin/bitcoin pull request and commentary data. Each output/pr number folder contains comments.json:

An implementation of the methods presented in Causal-BALD: Deep Bayesian Active Learning of Outcomes to Infer Treatment-Effects from Observational Data.

Unequal-Training-for-Deep-Face-Recognition-with-Long-Tailed-Noisy-Data. This is the code of CVPR 2019 paper《Unequal Training for Deep Face Recognition

Rethinking the Value of Labels for Improving Class-Imbalanced Learning This repository contains the implementation code for paper: Rethinking the Valu

ECRT: Energy-based Causal Representation Transfer Code for Supercharging Imbalanced Data Learning With Energy-basedContrastive Representation Transfer

The Open-Source MLOps Orchestration Framework MLRun is an open-source MLOps framework that offers an integrative approach to managing your machine-lea

ZenML is an extensible, open-source MLOps framework to create production-ready machine learning pipelines. It has a simple, flexible syntax, is cloud and tool agnostic, and has interfaces/abstractions that are catered towards ML workflows.

Flyte Flyte is a workflow automation platform for complex, mission-critical data, and ML processes at scale Home Page · Quick Start · Documentation ·

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

WebDataset WebDataset is a PyTorch Dataset (IterableDataset) implementation providing efficient access to datasets stored in POSIX tar archives and us

Machine Unlearning Papers 2021 Brophy and Lowd. Machine Unlearning for Random Forests. In ICML 2021. Bourtoule et al. Machine Unlearning. In IEEE Symp

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

Torch-template-for-deep-learning Pytorch implementations of some **classical backbone CNNs, data enhancement, torch loss, attention, visualization and

垃圾分类模型使用说明 1.包含以下数据文件 文件 描述 data/MaterialMapping.csv 物体以及其归类的信息 data/TestRecords 光谱原始测试数据 CSV 文件 data/TestRecordDesc.zip CSV 文件描述文件 data/Boundaries.cs

Discord_bot A Best and the most easy-to-use Discord bot !! Some simple basic auto moderations, Chat functions. It includes a game similar to Casino, g

dbt-superset-lineage Make dbt docs and Apache Superset talk to one another Why do I need something like this? Odds are rather high that you use dbt to

geneticml This package contains a simple and lightweight genetic algorithm for optimization of any machine learning model. Installation Use pip to ins

KIDA: Knowledge Inheritance in Data Aggregation This project releases our 1st place solution on NeurIPS2021 ML4CO Dual Task. Slide and model weights a

Model Validation Toolkit is a collection of tools to assist with validating machine learning models prior to deploying them to production and monitoring them after deployment to production.

Does-MAML-Only-Work-via-Feature-Re-use-A-Data-Set-Centric-Perspective Does MAML Only Work via Feature Re-use? A Data Set Centric Perspective Installin

audiometry Python scripts for plotting audiograms and related data from Interacoustics Equinox 2.0 audiometer and Otoaccess software. Maybe similar sc

Data Analysis for First Year Laboratory at Imperial College, London. For personal reference only, and to reference in lab reports and lab books.

This is a project of data parallel that running on NLP tasks.

Applied Machine Learning for Graduate Program in Computer Science (PPGCC) - Federal University of Santa Catarina

LitMatter A template for rapid experimentation and scaling deep learning models on molecular and crystal graphs. How to use Clone this repository and

Deep Abstract Networks A PyTorch code implemented for the submission DANets: Deep Abstract Networks for Tabular Data Classification and Regression. Do

EmTract: Extracting Emotions from Social Media Text Tailored for Financial Contexts EmTract is a tool that extracts emotions from social media text. I

A deep learning model for data-driven discovery of functional connectivity https://doi.org/10.3390/a14030075 Usman Mahmood, Zengin Fu, Vince D. Calhou

Voxelized 3D Feature Aggregation for Multiview Detection [arXiv] Multiview 3D object detection on MultiviewC dataset through VFA. Introduction We prop

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

Termos e acordos Ao iniciar este projeto, você concorda com as diretrizes do Código de Ética e Conduta e do Manual da Pessoa Estudante da Trybe. Boas

bicycle_hiring_app_deployed A data driven app for bicycle hiring in London(UK). It predicts expected number of bicycle hire in London. It asks users t

choropleth_ldn Simple script to create a chloropleth map of London with categorical timeseries data. The script in main.py creates a gif of the most f