MattHodgman

Matt Hodgman's repositories

celluster

Consensus clustering from multiple methods used in MCMICRO to cluster cell types.

Language:Python5 20

Drugstance

Calculate the semantic distance between drugs based on their indications using information theory.

Language:Python1 20

504GitExercise

Code to demonstrate simple use of github

Language:Python000

Aspen

A script and supporting files that can construct a tree using the MeSH terms of drugs in ChEMBL.

Language:Python020

AspNetCore.Docs

Documentation for ASP.NET Core

Language:C#CC-BY-4.0010

DrugCluster

Several algorithms to cluster drugs based on their similarity.

Language:Python020

ProteoHist

An AI method for predicting tumor protein expression from H&E histopathology slides

Language:Jupyter Notebook030

RxRx19aDLBatchCorrect

Python pipeline to identify and remove batch effects in the deep learning embeddings of the RxRx19a dataset and better identify potentially effective compounds against SARS-CoV-2

Language:Python020

DrugSimilarity

A python script for comparing drugs based on the semantic distance between the MeSH headings of their ChEMBL indications.

Language:Python020

DrugVis

Scripts for transforming and visualizing drug similarity and clustering data.

Language:Jupyter Notebook020

ExtRampOnline

An online implementation of the ExtRamp algorithm with user-friendly UI

Language:HTML030

FIDDLE

FIDDLE (https://doi.org/10.1093/jamia/ocaa139) edited so that it doesn't throw a specific error I keep getting (see issue #11 on original repo) and defaults with discretize: no

Language:Jupyter NotebookMIT010

ICCM

Iterative Combining Clusterings Method (ICCM) implementation in Python

Language:Python020

mcmicro

Multiple-choice microscopy pipeline

Language:NextflowMIT010

silhouette

A suite of tools for using silhouette scores to analyze clustering results

Language:Python020

umap

Run UMAP on cellular data from MCMICRO and color based on different clustering algorithm's cluster assignments.

Language:Jupyter Notebook020

WeightAndBalance

Determines if a Cessna 172 is safe to fly

Language:C++020