An open-source Raspberry-Pi based photobioreactor for cultivating and assessing physiology (photosynthesis & productivity) in microscopic algae.

An open-source Arduino based chlorophyll fluorometer for quantifying photosynthesis in photosynthetic organisms.

Simplified Photosynthesis and Evapotranspiration Model: process-based ecosystem model for simulating carbon and water fluxes.

Type an M x M matrix for your open quantum system Hamiltonian, and give a spectral density (analytic or numerical). FeynDyn gives the density matrix dynamics according to the Leggett-Caldeira bath or the Feynman-Vernon bath at any temperature. Can do up to 16 qubits (65536 levels) and infinitely many bath modes. Email nike@hpqc.org for the latest version or any questions.

GDAY simulates carbon, nitrogen & water dynamics

Code to reproduce the analysis and figures in 'A constraint on historic growth in global photosynthesis due to increasing CO2' Keenan et al. 2021. Nature https://www.nature.com/articles/s41586-021-04096-9

Small model to simulate biomass production on a global scale. Products are Gross Primary Production (GPP), Net Primary Production (NPP). It is based on a modified version of the Farquhar approach (Haxeltine and Prentice 1996, Farquhar et al. 1980). Where possible, it uses vectorization and parallelization and dynamically downloads latest av

RATP: Radiation Absorption, Transpiration and Photosynthesis

🍃 coupled leaf gas-exchange model

R scripts for automatic correction of Rapid A-Ci curves

coupled leaf gas-exchange model for C₄ leaves comparing stomatal conductance models

Fast and Efficient Processing of PAM Data

GUI for the C3 photosynthesis Farquhar, von Caemmerer & Berry model (1980)

READY TO USE. Documentation associated with the leaf-level gas exchange data and metadata reporting format for the ESS-DIVE repository

Control Scripts for Photon Systems Instruments (PSI) Bioreactor Client

[accepted] This is my playground submitted for WWDC18 Scholarship

Functions and a walkthrough to visualize common photosynthesis-irradiance relationships

Open-source PAR Meter

APES (Atmosphere - Plant - Exchange Simulator) codes in Matlab

Helper functions for Licor 6400 IRGA gas exchange files

Generate a scheme of the photosynthetic machinery for presentations or slides.

Apple II source code, in the Forth language, for a commercial photosynthesis educational program

CobraPy - Chlorella vulgaris iFR947 GSM model - Programming Documentation - Python, pandas, Jupyter Notebooks

the LI6400 portable photosynthesis meter exports data as a series of poorly formatted .xls files. If you've used "add remark" to indicate sample ID, these are shown as rows, not a separate column. This script extracts relevant data, and moves the sample ID information from remarks into a column.

Import data output from Visual Phenomics into a DataFrame

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Scripts to manage and clean data from Photosynthesis-Irradiance curves obtained from different methods

PAR Toolkit for LSP @ UCSC

Yet another R package to analyse the light response of photosynthesis

Flux partitioning: NEE -> GPP