Function reference • wgsLR

All functions

add_errors_Hd_w(): Add Hd-errors to table for one error probability, $w$

add_errors_Hd_wDwS(): Add Hd-errors to table for sample-dependent error probabilities, $w_D$ and $w_S$

add_errors_Hp_w(): Add Hp-errors to table for one error probability, $w$

add_errors_Hp_wDwS(): Add Hp-errors to table for sample-dependent error probabilities, $w_D$ and $w_S$

add_errors_to_genotypes(): Add errors to genotypes

allele_probs_to_geno_probs(): Allele probabilities to genotype probabilities assuming Hardy-Weinberg equilibrium

calc_LRs_w(): Calculate LR for a profile for one error probability, $w$

calc_LRs_wDwS(): Calculate LR for a profile for one error probability, $w$

d_formulas_Hd_w: Enumeration of possibilities under Hd for one error probability, $w$

d_formulas_Hd_wDwS: Enumeration of possibilities under Hd for sample-dependent error probabilities, $w_D$ and $w_S$

d_formulas_Hp_w: Enumeration of possibilities under Hp for one error probability, $w$

d_formulas_Hp_wDwS: Enumeration of possibilities under Hp for sample-dependent error probabilities, $w_D$ and $w_S$

d_formulas_single: Enumeration of possibilities for single observation

d_prob_Hd_w: Formulas under Hd grouped by XD and XS for one error probability, $w$

d_prob_Hd_wDwS: Formulas under Hd grouped by XD and XS for sample-dependent error probabilities, $w_D$ and $w_S$

d_prob_Hp_w: Formulas under Hp grouped by XD and XS for one error probability, $w$

d_prob_Hp_wDwS: Formulas under Hp grouped by XD and XS for sample-dependent error probabilities, $w_D$ and $w_S$

d_prob_LR_w: Formulas for LR grouped by XD and XS for one error probability, $w$

d_prob_LR_wDwS: Formulas for LR grouped by XD and XS for sample-dependent error probabilities, $w_D$ and $w_S$

d_probtable_Hd_w: Probabilties for efficient sampling under Hd for one error probability, $w$

d_probtable_Hd_wDwS: Probabilties for efficient sampling under Hd for one error probability, $w$

d_probtable_Hp_w: Probabilties for efficient sampling under Hp for one error probability, $w$

d_probtable_Hp_wDwS: Probabilties for efficient sampling under Hp for sample-dependent error probabilities, $w_D$ and $w_S$

estimate_w(): Estimate error probability, w

estimate_w_bayesian(): Estimate error probability, w, using a Bayesian approach

estimate_w_se(): Estimate standard error of error probability, w

extract_profile(): Extract profile from ranked markers

extract_profile_v1(): Extract profile

get_beta_parameters(): Beta distribution parameterisation conversion

get_ns(): Get counts from table

graph_Hd_w: Graph for enumeration of possibilities under Hd for one error probability, $w$

graph_Hd_wDwS: Graph for enumeration of possibilities under Hd for sample-dependent error probabilities, $w_D$ and $w_S$

graph_Hp_w: Graph for enumeration of possibilities under Hp for one error probability, $w$

graph_Hp_wDwS: Graph for enumeration of possibilities under Hp for sample-dependent error probabilities, $w_D$ and $w_S$

graph_single: Graph for enumeration of possibilities for single observation

marker_candidates_v1: Marker candidates (v1)

posterior_samples(): Extract posterior samples

reuse_genotype_probs(): Re-use genotype probabilities

sample_data_Hd_w(): Sample cases under Hd for one error probability, $w$

sample_data_Hd_wDwS(): Sample cases under Hd for sample-dependent error probabilities, $w_D$ and $w_S$

sample_data_Hp_w(): Sample cases under Hp for one error probability, $w$

sample_data_Hp_wDwS(): Sample cases under Hp for sample-dependent error probabilities, $w_D$ and $w_S$

sample_profiles_without_error(): Sample genotype without error

to012(): Convert to 0/1/2 notation