Pinned Repositories
cubap
Codon Usage Biases Across Populations
rampAtlas
Code used to retrieve, organize, and analyze data for the Ramp Atlas
504GitExercise
Code to demonstrate simple use of github
Aspen
A script and supporting files that can construct a tree using the MeSH terms of drugs in ChEMBL.
AspNetCore.Docs
Documentation for ASP.NET Core
celluster
Consensus clustering from multiple methods used in MCMICRO to cluster cell types.
Drugstance
Calculate the semantic distance between drugs based on their indications using information theory.
ProteoHist
An AI method for predicting tumor protein expression from H&E histopathology slides
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
umap
Run UMAP on cellular data from MCMICRO and color based on different clustering algorithm's cluster assignments.
MattHodgman's Repositories
MattHodgman/celluster
Consensus clustering from multiple methods used in MCMICRO to cluster cell types.
MattHodgman/Drugstance
Calculate the semantic distance between drugs based on their indications using information theory.
MattHodgman/umap
Run UMAP on cellular data from MCMICRO and color based on different clustering algorithm's cluster assignments.
MattHodgman/504GitExercise
Code to demonstrate simple use of github
MattHodgman/Aspen
A script and supporting files that can construct a tree using the MeSH terms of drugs in ChEMBL.
MattHodgman/AspNetCore.Docs
Documentation for ASP.NET Core
MattHodgman/DrugCluster
Several algorithms to cluster drugs based on their similarity.
MattHodgman/ProteoHist
An AI method for predicting tumor protein expression from H&E histopathology slides
MattHodgman/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
MattHodgman/DrugSimilarity
A python script for comparing drugs based on the semantic distance between the MeSH headings of their ChEMBL indications.
MattHodgman/DrugVis
Scripts for transforming and visualizing drug similarity and clustering data.
MattHodgman/ExtRampOnline
An online implementation of the ExtRamp algorithm with user-friendly UI
MattHodgman/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
MattHodgman/ICCM
Iterative Combining Clusterings Method (ICCM) implementation in Python
MattHodgman/mcmicro
Multiple-choice microscopy pipeline
MattHodgman/silhouette
A suite of tools for using silhouette scores to analyze clustering results
MattHodgman/WeightAndBalance
Determines if a Cessna 172 is safe to fly