Nathaniel Evans's repositories
atypical_doseresponse_classifier
This repo comprises a method to identify atypical dose-response curves using a Convolutional Neural Network trained from simulation data. Most of the implementation is aimed at 7-dose point response curves and attempts to predict hermetic dose points.
networkx_tutorial
BMI 567/667 networkx tutorial
AnalyticsCourse
Prework and In Course Assignments for Analytics Course
AttentionWalk
A PyTorch Implementation of "Watch Your Step: Learning Node Embeddings via Graph Attention" (NeurIPS 2018).
Galbraith_Lab_SPT
Research Rotation in the Galbraith Lab focused on Single Particle Tracking (SPT) in Total Internal Reflection Fluorescence (TIRF) Imaging.
Outer-Capillary-Angle-Analysis
Measurement method for the angle and orthogonality of a rigid glass fiber using multi-level stacked images.
synthetic_doseresponse_generator
This repo contains the methods necessary to simulate hormetic dose-response curves with a variety of user provided parameters.
BNN_tutorial
Brief Bayesian Neural Network (BNN) tutorial.
cancer_perturbation_datasets
EDA, pre-processing and sourcing of datasets relevant gene expression perturbation datasets (cancer focused).
cyclicIF_registration
Registration pipeline for cyclic immuno-fluorescence.
DesignDocumentTemplates
Light weight design document templates in Markdown format.
DVGS
Data Valuation with Gradient Similarity (DVGS)
EVANS_GNNCDR_ISMB2022
Info and References page for Nathaniel Evans poster presentation at ISMB 2022, titled: "Prediction of drug-perturbed cancer cell line gene expression using graph neural networks"
HNSCC_functional_data_pipeline
This project is joint lead by Shannon McWeeney & Molly F. Kulesz-Martin. The purpose of this project is to put together an analysis pipeline for functional assay data generated by the HNSCC project.
HNSCC_Trametinib_Combination_Therapy
Patient Specific Potential for Trametinib Therapy in HNSCC
NetworksBiology_graph_learning
OHSU BMI567/667 Graph Learning Week
STATS572_Bayesian_Stats_Final
Repo for the final project
The-Cancer-Targetome
Initial data release for drug-target interactions of the cancer targetome.
TrojanArrow
Predicting Gene Dependency (DepMap: Achilles Dataset) using RNA expression in a GCN + VNN framework.
uncertain_tools
toolkit for evaluating probabilistic models with emphasis on model calibration and uncertainty quantification