Nano-Thermal Bioengineering Laboratory at UT Dallas's repositories
pharmacodynamic-response-models
Collection of pharmacodynamic response models, including dose-response, inhibitor-response, and various receptor-response models that can be fit to response data.
aunp-fragmentation-model-and-fitting
Fragmentation distribution fitting and model analysis for our paper Kang et al. J. Phys. Chem. C 2021, 125, 48, 26718–26730
DIAMOND
DIAMOND signal analysis
diffusion-fit
Extract estimates of dye/peptide diffusion coefficients and loss rates from a time-sequence of fluorescence images.
extracellular-models
Reaction-diffusion models to simulate the dynamics of fluorescent dyes and peptides in the brain extracellular space implemented using the extracellular simulator in NEURON.
lammps_output_analysis
Python tools to parse, post-process, and analyze outputs from LAMMPS commands.
parm-streamlit-app
A streamlit app to interact with PARM and test running the model.
roi-plotter
A streamlit app to read cell ROI data from csv files and plot the fluorescence traces.
peptide-property-app
Used peptides.py to predict peptide properties from the amino acid sequence.