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3d_met_np_analysis

Image processing scripts written to analyze physiology and nanoparticle delivery to micro metastases. Published by Kingston et al. in "Evaluating micrometastases as a target for nanoparticles using 3D microscopy and machine learning” . 2019.

bert

TensorFlow code and pre-trained models for BERT

bioasq-biobert

Pre-trained Language Model for Biomedical Question Answering

clinicalbert

repository for Publicly Available Clinical BERT Embeddings

cvode-wrapper-for-matlab

The CVode package generates compiled MEX (Matlab Executables) files for the simulation of Ordinary Differential Equation (ODE) models, composed of systems of coupled nonlinear ODEs.

matcl

OpenCL wrapper for Mathworks Matlab

md-davis

MD DaVis: A python package to analyze molecular dynamics trajectories of proteins

misc

network-dynamics

neural-ode

Jupyter notebook with Pytorch implementation of Neural Ordinary Differential Equations

ode45gpu

Demos of modification on original ode45, in order to easily do ODE propagation, on NVidia GPU, through MATLAB interface. No kernel, no C, no CUDA, no compile. Best for agile experiments!

pancreas-model

petab

PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology

physipkpd

a module template for drug treatment in PhysiCell

project_dynamics

sbinn

SBINN: Systems-biology informed neural network

simplecvodewrapper

This is a C library that wraps CVODE in a simpler interface for solving system of differential equations.

surya

OCR and line detection in 90+ languages

torchdiffeq

Differentiable ODE solvers with full GPU support and O(1)-memory backpropagation.