Quantitative RNA-FISH Probe Design Software

The official sources for the RDKit library

A curated list of global electrical grid maps, datasets and resources.

Protein Embedding Aligner Plus Output Display

A simplified python interface to COPASI.

CrunchFlow

Python Wrapper for the System Advisor Model

Python files and Jupyter notebooks for processing the Annual Technology Baseline (ATB) electricity data and determining LCOE and other metrics.

PFLOTRAN interface for coupling BGC & TH modes with E3SM Land Model (ELM)

input files for developing a REDOX ladder in PFLOTRAN

Performant library for thermodynamic calculations and equilibrium reactions

Streamlining Mass Spectrometry Data Visualization with Pandas

A series of python scripts which aid in the processing and interpretation of mass spectrometric data (formerly Mass-Spec-Python-Tools)

Codebase for "A Foundation Model for Cell Segmentation"

a unified framework for modeling chemically reactive systems

EQ3/6, a Software Package for Geochemical Modeling

Code for stochastic 0D and water column 1D models of microbial consumption of organic matter.

An introduction to deepcell and deep learning

This is a repository that contains all code and data needed to reproduce the results of a meta-research study looking at code (and data) sharing in ecology journals with and without code-sharing po…

1-D numerical model, that simulates the vertical coralgal growth patterns observed in a drill core

Oxidized Astrodynamics

Mesa is an open-source Python library for agent-based modeling, ideal for simulating complex systems and exploring emergent behaviors.

Analysing satellite imagery of the Jan 2025 Southern California wildfires

Translation of Nguyen et al. 2022 from Matlab into Julia

Scripts for the manuscript entitled "Emergent coexistence in multispecies microbial communities"

A sequence of Jupyter notebooks featuring the "12 Steps to Navier-Stokes" http://lorenabarba.com/