Archived analysis code for: Benning, John W., Jedidiah Carlson, Olivia S. Smith, Ruth G. Shaw, and Arbel Harpak. "Confounding Fuels Misinterpretation in Human Genetics." bioRxiv (2024): 2023-11.

This repository preserves the R workflows that accompany our article. The documents Clark2023.Rmd and SZ2024.R will reproduce the statistical analyses and figures reported in the paper.

---

Note   No raw data are committed to GitHub because they are covered by the original authors’ license. Follow the steps in the next section to obtain them.

---

Data sources

Clark 2023 analyses

clark_reportedCors.csv contains the reported correlations in Clark (2023) Table 2 and is found in this repository.

All other data come from the supplementary datasets accompanying:

Clark, Gregory. "The inheritance of social status: England, 1600 to 2022." Proceedings of the National Academy of Sciences 120, no. 27 (2023): e2300926120.

Supplementary data can be found at https://www.pnas.org/doi/10.1073/pnas.2300926120#supplementary-materials.

The supplementary data contain four Excel workbooks (Datasets 1–4) from which we extracted the following .csv files:

csv file	Source in Clark 2023 Supplementary data	Contents
clark_wealth.csv	Dataset 4, Figure 3 - ded occ lwealth tab	Maternal / paternal wealth and status
clark_lit.csv	Dataset 4, Figure 3 - Literacy tab	Literacy data
clark_fatherSon.csv	Dataset 4, Figure 4 tab	Father-son data, with son age at father death
clark_inds.csv	Dataset 1	Individual-level data
clark_rels.csv	Dataset 2, Table 2 1910‑97	Relative pair data for modern status measures
clark_rels_occ.csv	Dataset 2, Table 2 Occ Stat 1780-1919	Occupational status data
clark_rels_ded.csv	Dataset 3, Table 2 Ded 1780-1919	Higher education data
clark_rels_lit.csv	Dataset 3, Table 2 Literacy 1754-1889	Literacy data

Song and Zhang 2024 analyses

All data come from the archived datasets found here: https://datadryad.org/dataset/doi:10.5061/dryad.4b8gthtk9

---

Citing this code

If you build upon these scripts, please cite both our paper and the appropriate paper for the underlying data:

Benning, John W., Jedidiah Carlson, Olivia S. Smith, Ruth G. Shaw, and Arbel Harpak. "Confounding Fuels Misinterpretation in Human Genetics." bioRxiv (2024): 2023-11.

Clark, Gregory. "The inheritance of social status: England, 1600 to 2022." Proceedings of the National Academy of Sciences 120, no. 27 (2023): e2300926120.

Song, S., and J. Zhang. 2024. Genetic variants underlying human bisexual behavior are reproductively advantageous. Sci. Adv. 10:eadj6958.

---

Contact

Please email [email protected].