Man pages for StoreyLab/bnpsd
Simulate Genotypes from the BN-PSD Admixture Model
| admix_prop_1d_circular | Construct admixture proportion matrix for circular 1D... |
| admix_prop_1d_linear | Construct admixture proportion matrix for 1D geography |
| admix_prop_indep_subpops | Construct admixture proportion matrix for independent... |
| bnpsd | A package for modeling and simulating an admixed population |
| coanc_admix | Construct the coancestry matrix of an admixture model |
| coanc_to_kinship | Transform coancestry matrix to kinship matrix |
| coanc_tree | Calculate coancestry matrix corresponding to a tree |
| draw_all_admix | Simulate random allele frequencies and genotypes from the... |
| draw_all_unstructured | Simulate random allele frequencies and genotypes from the... |
| draw_genotypes_admix | Draw genotypes from the admixture model |
| draw_p_anc | Draw random Uniform or Beta ancestral allele frequencies |
| draw_p_subpops | Draw allele frequencies for independent subpopulations |
| draw_p_subpops_tree | Draw allele frequencies for subpopulations related by a tree |
| fit_tree | Fit a tree structure to a coancestry matrix |
| fixed_loci | Identify fixed loci |
| fst_admix | Calculate FST for the admixed individuals |
| make_p_ind_admix | Construct individual-specific allele frequency matrix under... |
| scale_tree | Scale a coancestry tree |
| tree_additive | Calculate additive edges for a coancestry tree, or viceversa |
| tree_reindex_tips | Reindex tree tips in order of appearance in edges |
| tree_reorder | Reorder tree tips to best match a desired order |
| undiff_af | Undifferentiate an allele distribution |
