wane199

mimic-code

MIMIC Code Repository: Code shared by the research community for the MIMIC family of databases

adv-r

Advanced R: a book

shiny-examples

mastering-shiny

Mastering Shiny: a book

pymol-open-source

Open-source foundation of the user-sponsored PyMOL molecular visualization system.

T3Bench

T3Bench: Benchmarking Current Progress in Text-to-3D Generation

DrWhy

DrWhy is the collection of tools for eXplainable AI (XAI). It's based on shared principles and simple grammar for exploration, explanation and visualisation of predictive models.

equatiomatic

Convert models to LaTeX equations

R_for_Data_Science

Materials for teaching R and tidyverse

mimic-iv

Deprecated. For the latest MIMIC-IV code, please refer to: https://github.com/MIT-LCP/mimic-code

HistoQC

HistoQC is an open-source quality control tool for digital pathology slides

mimic-cxr

Code, documentation, and discussion around the MIMIC-CXR database

PORPOISE

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

rprogdatascience

paquo

PAthological QUpath Obsession - QuPath and Python conversations

survex

Explainable Machine Learning in Survival Analysis

dietaryindex

R Package for Calculating Healthy Eating Index-2020 (HEI2020), Alternative Healthy Eating Index (AHEI), Dietary Approaches to Stop Hypertension (DASH), Mediterranean Diet (MED), Dietary Inflammation Index (DII), and Planetary Health Diet Index from the EAT-Lancet Commission (PHDI) for the NHANES, ASA24, DHQ, and other dietary assessments

BioEnricher

Integrate Analysis and Visualization for Bioinformatic Enrichment Analyzer

monai-bootcamp

Ambertools-OpenMM-MD

Open Source, Mostly just clicking mouse to finish a simulation with Ambertools and OpenMM. It was designed to use locally but another notebook to finish the simulaiton on Colab was attached as well.

MIMIC_IV_Sepsis

mlr3automl

Automated machine learning in mlr3

Machine-Learning-Tutorials

BCT

The Brain Connectivity Toolbox: https://sites.google.com/site/bctnet/

calcFD

Calculate the fractal dimensionality of a 3D structure

brainprep

Module providing brain MR images pre-processing workflows for Deep Learning.

FracAnalysis

Some basic python tools for representing and analyzing fracture traces on 2D planes. Includes functionality for finding lengths of fractures, intersections of fracture traces with other objects like straight and circular scan lines, and computing fracture intensity. Very much a work in progress.

MIRDCalculation

Python application to calculate internal dosimetry following MIRD formulation

j-pet-framework-examples

Example analyses based on the J-PET Analysis Framework

miscellaneous

Miscellaneous neuroimaging support scripts