Analysis code for Rodrigues et al., 2024, with example datasets.
Contains the following notebooks outlining some of the analysis methods in the paper:
- LOWESS Code for performing LOWESS scatterplot smoothing on dosage vs phenotype data (Figures 3 and 7)
- Variance Code for performing local variance estimation on dosage vs phenotype data (Figure 3)
- Membrane quantification Code for extracting membrane concentrations from midplane confocal images of embryos (Figures 4 and 5)
To run the notebooks interactively you have two options:
If you're using conda, just download the code, navigate to the code folder in your terminal, and run the following:
conda env create -f environment.yml
conda activate robustness-paper
jupyter notebook scripts/INDEX.ipynb
Alternatively, you could create a virtual environment (with Python 3.11.6) and install the requirements using pip (pip install -r requirements.txt).
To run in the cloud using Binder, click here:
(Please note that it may take several minutes to open the notebook, and it will often fail to launch due to issues with the Binder server)
This work is licensed under a Creative Commons Attribution 4.0 International License.
