Scots pine genotypes from Finland, code and supplementary data for the paper: "Does the seed fall far from the tree? Weak fine-scale genetic structure in a continuous Scots pine population"
Description
Supplementary data for the manuscript:
"Does the seed fall far from the tree? Weak fine-scale genetic structure in a continuous Scots pine population"
Files included in the dataset:
1. & 2. "Genotypes.ped" & Genotypes.map": PLINK genotype file in .ped format and SNP position file in .map format including filtered genotype data for 469 individuals and 65 498 SNPs used for principal component analysis (PCA) and estimating pairwise relatedness.
3. "MAF_01_pine_426inds_23623_loci.raw" : Plink Genotype file in .raw format including 23 623 SNPs for 426 unrelated Scots pines used in the rare allele analyses.
4. "Locations_population.txt" : Location information for 469 Scots pines in Punkaharju research area. The sampling site ("Ranta-Halola" or "Mäkrä") is given.
Command files included:
5. "Spatial_R_commands_fighsare.R": Main R commands of the PCA, FST and Mantel analyses.
6. "GCTA_commands_figshare.txt": Main GCTA commands for estimating relatedness and inbreeding.
Supplementary data file:
7. "Niskanen_etal_2024_Supplements.pdf": Includes Supplementary figures S1-S6 and tables S1-S2.
Show moreYear of publication
2024
Authors
Katri Kärkkäinen - Creator
figshare - Publisher
Other information
Fields of science
Ecology, evolutionary biology; Genetics, developmental biology, physiology
Language
English
Open access
Open