amm2tibble |
convert an ancestry-matching matrix to a ggplot-able tibble |
compile_related_pairs |
compile pairwise relationships from the samples |
count_and_plot_ancestry_matrices |
Count up the number of different kinds of related pairs and make a plot |
count_and_plot_mate_distribution |
Count and plot the number of mates each individuals has produced offspring with |
downsample_pairs |
downsample the number of individuals sampled |
example_amms |
a list of examples of ancestry-match matrices |
ggplot_census_by_year_age_sex |
Just a simple plot function |
half_first_cousin_amm |
A half-first cousin ancestry match matrix |
install_spip |
Download the spip binary and install it where CKMRpop expects it |
leslie_from_spip |
Return a Leslie-like matrix from the spip parameters |
plot_amm_from_matrix |
plot an ancestry matrix (or multiple such matrices) from its (their) matrix form |
plot_conn_comps |
plot the graph showing the connected components |
relationship_zone_names |
relationship zone names |
relationship_zone_perimeters |
Return the perimeters of all the relationship zones |
run_spip |
Run spip in a user-specified directory |
slurp_spip |
Read in the pedigree, census, and sampling information from the spip run |
species_1_life_history |
a list of life-history / life-table data for a hypothetical species |
species_1_slurped_results |
The result of running spip in the species_1_simulation vignette. |
species_1_slurped_results_100_loci |
The result of running spip in the species_1_simulation vignette with 100 loci. |
species_1_slurped_results_1gen |
The result of running spip in the species_1_simulation vignette and slurping out with num_generations = 1. |
species_2_life_history |
a list of life-history / life-table data for another hypothetical species |
spip_exists |
return TRUE if spip exists where it should be installed. |
spip_help |
print the abbreviated usage information from spip |
spip_help_full |
print the full usage information from spip |
summarize_offspring_and_mate_numbers |
Summarize the distribution of number of offspring and number of mates |
summarize_survival_from_census |
Summarize annual sex-and-age-specific survival rates from the census information |
three_pops_no_mig_slurped_results |
The result of running spip and slurping the output in the three population case with no migration |
three_pops_with_mig_slurped_results |
The result of running spip and slurping the output in the three population case with migration |
uncooked_spaghetti |
Summarise kin-pair information and use it to create uncooked spaghetti plots |