API for ibdsegments
Identity by Descent Probability in Pedigrees
| Global functions | |
|---|---|
| .assert_ids_are_not_inbred_founders | Source code |
| .assert_no_founder_inbreeding | Source code |
| .check_ids_compatible_with_states_idx | Source code |
| .validate_chromosome_length | Source code |
| .validate_integer | Source code |
| .validate_logical | Source code |
| .validate_not_ibd_fraction_dist | Source code |
| .validate_numeric | Source code |
| .validate_obs_compatible_with_states_idx | Source code |
| .validate_pedigree | Source code |
| .validate_pedigree_ids | Source code |
| .validate_rcibd_result | Source code |
| .validate_recombination_rates_compatible_with_obs | Source code |
| .validate_states | Source code |
| .validate_total_ibd_dist | Source code |
| E | Man page Source code |
| E.segment_count_dist | Source code |
| E.total_ibd_dist | Source code |
| FFT_T | Source code |
| FFT_p | Source code |
| Q_matrix | Source code |
| convolve_segment_count_dists | Source code |
| convolve_total_ibd_dists | Man page Source code |
| convolve_two_segment_count_dists | Source code |
| convolve_two_total_ibd_dists | Source code |
| ctmc_donnelly_block_Q | Source code |
| ctmc_donnelly_cousin | Source code |
| ctmc_donnelly_grandparent | Source code |
| ctmc_donnelly_halfsib | Source code |
| ctmc_donnelly_uncle | Source code |
| cumulative_simpson_cpp | Source code |
| d | Man page Source code |
| d.segment_count_dist | Source code |
| d.total_ibd_dist | Source code |
| d_cibd | Man page Source code |
| d_fraction_ibd_state | Source code |
| d_ibd | Man page Source code |
| discretise_cdf | Source code |
| discretise_pdf | Source code |
| find_index_of_first_non_zero | Source code |
| find_index_of_last_non_zero | Source code |
| get_Jacquard_state | Source code |
| get_detailed_Jacquard_state | Source code |
| get_founder_labels_for_v | Source code |
| get_ibd_state | Source code |
| get_ibd_state_1p | Source code |
| get_ibd_state_2p | Source code |
| get_ibd_states_by_v | Source code |
| get_joint_ibd_state | Source code |
| get_kappa_state | Source code |
| get_multi_ibd_patterns_by_v | Source code |
| get_option_ignore_irrelevant_transmissions | Source code |
| get_unique_masks_and_count | Source code |
| half_sib_type_ped | Source code |
| ibd_log10_pr_cpp | Source code |
| ibdsegments | Man page |
| ibdsegments-package | Man page |
| inheritance_pattern | Man page Source code |
| inheritance_space | Man page Source code |
| integrate_pdf_to_cdf | Source code |
| list_pedigree_transmissions | Source code |
| log10_ibd_segment_pr_cpp | Source code |
| log10_ibd_segment_pr_vectorised_cpp | Source code |
| minimal_pattern | Source code |
| multi_ibd_patterns | Man page Source code |
| multi_ibd_patterns_by_v_df | Source code |
| multi_ibd_patterns_df | Source code |
| one_F_step | Source code |
| one_F_step_segment_count | Source code |
| one_p_step | Source code |
| plot.segment_count_dist | Source code |
| plot.total_ibd_dist | Source code |
| pmf_of_sum | Source code |
| pr_0_total_ibd | Man page Source code |
| pr_all_genes_survive | Man page Source code |
| pr_always_in_state | Source code |
| pr_never_in_state | Source code |
| pr_number_of_intervals_in_state_by_n | Source code |
| pr_number_of_segments_by_n | Source code |
| pr_stay_and_leave | Source code |
| precompute_V_lbeta | Source code |
| print.inheritance_space | Source code |
| print.total_ibd_dist | Source code |
| q_step | Source code |
| r_cibd | Man page Source code |
| random_ibd | Source code |
| sd | Man page Source code |
| sd.default | Source code |
| sd.segment_count_dist | Source code |
| sd.total_ibd_dist | Source code |
| segment_count_dist | Man page Source code |
| set_option_ignore_irrelevant_transmissions | Source code |
| to_mask | Source code |
| total_ibd_dist | Man page Source code |
| total_ibd_dist_moments | Man page Source code |
| v_prior_with_f | Source code |
| v_prior_with_f_cpp | Source code |
| validate_recombination_rates_cpp | Source code |
| var | Man page Source code |
| var.default | Source code |
| var.segment_count_dist | Source code |
| var.total_ibd_dist | Source code |
