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Companion scripts for DMS data processing, dose-response curve fitting and figure reproduction ("The genetic architecture of an allosteric hormone receptor", Stammnitz & Lehner, biorXiv 2025)

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Scripting Copyright

Analysis scripts accompanying Stammnitz and Lehner, 2025

Lehner Laboratory (Genetic Systems), Centre for Genomic Regulation (2022-2025)

This repository contains custom R scripts which - in conjunction with the associated supplementary files - can be used to replicate the main and supplementary figures presented in:

The genetic architecture of an allosteric hormone receptor (bioRxiv, 2025)

example

The scripts are written to run on R version 4.4.1 or later. You should be able to check your current version of R by running the command below:

R --version

The current R version is also shown when opening RStudio or the R Console.

Scripts require the following R packages: readxl, stringr, scales, bio3d, drc, growthrates, reshape, ggplot2, ggtext, ggrepel, GGally, cowplot, pheatmap, beeswarm, viridis, wesanderson.

Although care has been taken to make the code distribution-independent, it is possible that some of the scripts only work on Unix/MacOS systems, and may need to be modified in order to run on Windows systems.

Sequencing data for reproducing the raw variant fitness estimates can be found under the European Nucleotide Archive BioProject accession no. PRJEB89674.

For any feedback or requests, please get in touch with me via email: maximilian.stammnitz@crg.eu

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Companion scripts for DMS data processing, dose-response curve fitting and figure reproduction ("The genetic architecture of an allosteric hormone receptor", Stammnitz & Lehner, biorXiv 2025)

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