jeliason

AgentNet

Pytorch implementation of AgentNet, which is designed for reveal hidden interactions and predict future dynamics of the unknown complex system.

AWS-JPL-OSR-Challenge

Official repo of the AWS-JPL Open Source Rover challenge

b545_g4_project

bioinf593_final_project

Final project for Bioinf 593: ML in Comp Bio

brain_stat_graph

Experiments in statistics of networks, using brain connectivity graphs

hippo

Using state space models on neural spiking data in the hippocampus

school_projects

Several notable projects done while at Northwestern

scrna_analysis

A repository containing my investigations into single-cell RNAseq analysis, especially as applied to cancer

spatialkmeans

Single-cell spatial omics clustering, incorporating the physical distance between cells into the omics distance. This penalizes cells that are further away from being in the same cluster.

DIMPLE

jeliason/b545_g4_project

jeliason/spatialkmeans

Single-cell spatial omics clustering, incorporating the physical distance between cells into the omics distance. This penalizes cells that are further away from being in the same cluster.

jeliason/AgentNet

Pytorch implementation of AgentNet, which is designed for reveal hidden interactions and predict future dynamics of the unknown complex system.

jeliason/bioinf593_final_project

Final project for Bioinf 593: ML in Comp Bio

jeliason/hippo

Using state space models on neural spiking data in the hippocampus

jeliason/scrna_analysis

A repository containing my investigations into single-cell RNAseq analysis, especially as applied to cancer

jeliason/cancer_immune_modeling

jeliason/causality-lab

Causal discovery algorithms and tools for implementing new ones

jeliason/csbjDeepLearning

Deep Learning Predicts Microbial Interactions from Self-organized Spatiotemporal Patterns

jeliason/dyn-gfn

DynGFN: Bayesian Dynamic Causal Discovery using Generative Flow Networks

jeliason/dynamo-release

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

jeliason/gnn-model-explainer

gnn explainer

jeliason/HAL

HAL (Hybrid Automata Library) is the one-stop shop for all of your hybrid modeling needs

jeliason/histocartography

Histocartography is a framework bringing together AI and Digital Pathology

jeliason/hmmlearn

Hidden Markov Models in Python, with scikit-learn like API

jeliason/mgpp_TME

jeliason/nbhdUtils

jeliason/nest-simulator

The NEST simulator

jeliason/patho-quant-explainer

Code for replicating results presented in the paper: "Quantifying Explainers of Graph Neural Networks in Computational Pathology"

jeliason/PhysiCell-Studio

PhysiCell Studio is a graphical tool to allow easy editing of a (XML) model, create initial positions of cells, run a simulation, and visualize results. To contribute, fork and make PRs to the development branch.

jeliason/ppjsdm

Point process joint species distribution models

jeliason/ppjsdm_on_datasets

Using the ppjsdm package on datasets.

jeliason/python-glmnet

A python port of the glmnet package for fitting generalized linear models via penalized maximum likelihood.

jeliason/QSPIO-TNBC

This repository contains the latest QSP platform for TNBC developed by the Popel Systems Biology Laboratory

jeliason/rgeyer

Simulate Geyer's saturation process. Aimed for multi-variate and multi-scale versions.

jeliason/rslurm

Submit R code to a Slurm cluster

jeliason/sbi

Simulation-based inference in PyTorch

jeliason/SERGIO

A simulator for single-cell expression data guided by gene regulatory networks

jeliason/shiny-reticulate-app

An end-to-end tutorial creating an R Shiny app that uses the reticulate package with Python 3

jeliason/SpatialPack

Tools for assessment the association between two spatial processes