Evolution of stickleback spines through independent cis-regulatory changes at HOXDB

Supporting data and code for Wucherpfennig et al. Nature Ecology and Evolution. R codes, count matrices, phenotype files, and genotype files are organized by the figure in which they are used (with the exception of the QTL mapping files assign to Figure 1 that were also used for Extended Data Figures 1 and 2). Shell scripts used for allele-specific RNA-sequencing analysis are numbered in the order in which they were used. Raw sequencing data can be found on SRA and GEO. Other phenotype files are included in the source data of the paper on the NEE website.