A genomic basis of vocal rhythm in birds

In this repository we provide processed data to reproduce the main results of the manuscript entitled "A genomic basis of vocal rhythm in birds"The data should be used in combination with the scripts available at: [https://github.com/MatteoSebastianelli/Tinkerbird_SongGene]We provide the following files:MS_StabilityMaster_Tinkerbirds_SingleRecs_10Mar23.xlsx: dataset to perform the song stability analyses.southern_africa_biallelic_snps_minDP4_MaxMiss20_MAF5.vcf.gz: ddRAD genomic datatinkerbirds_merged_SNPs_biallelic_max-miss0.95_maf0.03_minmaxDP3.5_50.vcf.gz: whole-genome genomic dataMS_SouthernAfrica_ddRADS_95SympF_14Mar23.xlsx: spreadsheet containing parental ancestry of each sympatric female individualMS_Tinkerbird138_Master_06Oct23.xlsx: main dataset containing mean phenotypic data and ancestry values for the 138 individuals sequenced at the whole-genome level.Fst_average500kb_results_16Feb23.txt: Genome-wide Fst calculated in 500Kb windows used for Figure 2LD_average500kb_results_16Feb23.txt: Genome-wide R2 (LD) calculated in 500Kb windows used for Figure 2GC_CONTENT_500k.bed: GC content calculated in 500Kb windows used for Figure 2REPEATS_500k__.bed: repeat content calculated in 500Kb windows used for Figure 2SNPs_500k__.bed: SNP density content calculated in 500Kb windows used for Figure 2gemma_ioi_Symp_17Nov22_max-miss0.95_maf0.03_minmaxDP3.5_50.assoc.txt: GEMMA output used for figures 3a, cAS28702_AllChr_combined_ave_anc_pos.txt: raw data for Fig4bAS39306_AllChr_combined_ave_anc_pos.txt: raw data for Fig4bAS53235_AllChr_combined_ave_anc_pos.txt: raw data for Fig4btinkerbirds135_symp_chr25_thin2500.geno.ld.txt: raw data for FigS8SourceData.xlsx: Raw data of all manuscript figures</p