README file

This project implements the updated analysis of the relationship between tone and the two "derived" alleles of ASPM and Microcephalin (MCPH1), and is structured as follows:

• the data folder contains the data needed for the analysis (and any dedicated pre-processing) and is structured into two sub-folders (genetics and language), each structured in turn into input (the primary data), code (containing an R script dedicated for downloading and pre-processing the input data) and output (containing the pre-processed data ready for use in the main analysis):

  • the genetics sub-folder contains the data and code related to the population frequencies of the two "derived" alleles (or their proxies):

    • the input sub-folder contains the input files (TSV or CSV formats).

    • the code contains the R script 00_preprocesses_genetics.R which pre-processes and combines these various data sources.

    • following the pre-processing, the output folder will contain the data used in the analyses.

  • the language sub-folder contains the data and code related to the tone data:

    • the input sub-folder contains the input files (mostly in TSV or CSV formats, but also other formats specific to the dataset).

    • the code contains the R script 00_preprocess_language.R which downloads, pre-processes and combines these various data sources.

    • following the pre-processing, the output folder the data used in the analyses.

• the code folder contains the Rmarkdown script and needed auxiliary files, and two sub-folders:

  • figures, where the publication-quality figures for the paper are placed, and

  • cache-results where the computationally expensive intermediate results are stored for faster compilation and reproducibility.

Please note that these data, code and results are released under GPL2 (https://www.gnu.org/licenses/old-licenses/gpl-2.0.en.html) unless otherwise specified in the original sources.

Dan Dediu [ddediu@gmail.com], May 2021