160 Open source projects that are alternatives of or similar to OAProgression

Code and pretrained model for paper "Learning to Summarize Radiology Findings"

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

A Deep Learning Approach to Ultrasound Image Recovery

Clincal Quality Language Specification

Anonymized dataset of COVID-19 cases with a focus on radiological imaging. This includes images (x-ray / ct) with extensive metadata, such as admission-, ICU-, laboratory-, and patient master-data.

Short course on reproducible science: what, why, how

ukbREST: efficient and streamlined data access for reproducible research of large biobanks

Reproducible reanalysis of a combined ChIP-Seq & RNA-Seq data set

A robust, extensible metagenomics pipeline

Empirical Software Engineering journal (EMSE) open science and reproducible research initiative

MONAI Deploy aims to become the de-facto standard for developing, packaging, testing, deploying and running medical AI applications in clinical production.

Reproducible research and reusable acyclic workflows in Python. Execute code on HPC systems as if you executed them on your personal computer!

Reproducible Self-Publishing - Demo Publications in the Most Common Formats

Code for "Depth Uncertainty in Neural Networks" (https://arxiv.org/abs/2006.08437)

Niffler: A DICOM Framework for Machine Learning and Processing Pipelines.

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

#nowplaying-RS: Music Recommendation using Factorization Machines

Open Plant Pathology website

📓 Non-parametric Bayesian Inference for Conservation Decisions

Public scenarios to crowdsource experiments (such as DNN crowd-benchmarking and crowd-tuning) using Collective Knowledge Framework across diverse mobile devices provided by volunteers. Results are continuously aggregated at the open repository of knowledge:

A minimal example data analysis project with the targets R package

Manager for multi-container computing environments

CloudCV GSoC 2021 Ideas

Intelligent Word Embeddings of Free-Text Radiology Reports

A setup script to generate ITK Python Wheels

Guide for Reproducible Research and Data Science in Jupyter Notebooks

Best practices for applying machine learning to bacterial 16S rRNA gene sequencing data

Track changes in data with ease

A library for creating and curating reproducible pipelines for scientific and industrial machine learning

NOTE: This repo is archived. Please see https://github.com/benmarwick/rrtools for my current approach

Fully reproducible, open source scientific articles in LaTeX.

GlucoSym is an open-source simulator aimed to help in the testing and development of insulin delivery automation systems.

🏥 OpenMRS Radiology Module

A builder for LaTeX, knitr, literate Agda, literate Haskell and Pweave that automatically builds dependencies.

Cross-disease comparison of case-control gut microbiome studies

pytask is a workflow management system which facilitates reproducible data analyses.

WRENCH: Cyberinfrastructure Simulation Workbench

IMS Machine Learning Lab publications.

Medical action ontology

Open solution to the Google AI Object Detection Challenge 🍁

揭穿中医网站源文件

Collective Knowledge web extension to browse CK repositories, visualize interactive graphs and articles, render CK-based websites, implement simple web services with JSON API (for example to crowdsource experiments or unify access to DNN). Demos of interactive articles, graphs and crowdsourced experiments:

Combining Automatic Labelers and Expert Annotations for Accurate Radiology Report Labeling Using BERT

Emory BMI GSoC Project Ideas

Platform for integrating genomic analysis with Jupyter Notebooks.

Rmarkdown templates for reproducible science

The GenePattern Server web application

Cookbook examples for the Insight Toolkit documented with Sphinx

An open source openEHR server

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

Medicinal Products Registry API, from dane.gov.pl, with GraphQL.

The CDS Authoring Tool is part of the CDS Connect project https://cds.ahrq.gov/, sponsored by the Agency for Healthcare Research and Quality (AHRQ), and developed under contract with AHRQ by MITRE's CAMH FFRDC.

Deploy a BinderHub from scratch on Microsoft Azure

Image-based COVID-19 diagnosis. Links to software, data, and other resources.

Coding Standards for the USC Biostats group

Julia package for reading and writing DICOM (Digital Imaging and Communications in Medicine) files

Papers with code for single cell related papers

Collective Knowledge extension with unified and customizable benchmarks (with extensible JSON meta information) to be easily integrated with customizable and portable Collective Knowledge workflows. You can easily compile and run these benchmarks using different compilers, environments, hardware and OS (Linux, MacOS, Windows, Android). More info:

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

Radiology Objects in COntext (ROCO): A Multimodal Image Dataset