R Packages that start with:
A . B . C . D . E . F . G . H . I . J . K . L . M . N . O . P . Q . R . S . T . U . V . W . X . Y . Z .
Functions
- add_marker()
- add_mrk_at_tail_ph_list()
- aggregate_matrix()
- cache_counts_twopt()
- calc_genoprob()
- calc_genoprob_dist()
- calc_genoprob_error()
- calc_genoprob_haplo()
- calc_genoprob_one_parent()
- calc_homologprob()
- calc_prefpair_profiles()
- cat_phase()
- check_data_dist_sanity()
- check_data_dose_sanity()
- check_data_sanity()
- check_if_rf_is_possible()
- check_ls_phase()
- check_pairwise()
- compare_haplotypes()
- compare_maps()
- concatenate_new_marker()
- concatenate_ph_list()
- create_map()
- dist_prob_to_class()
- draw_cross()
- draw_phases()
- drop_marker()
- elim_conf_using_two_pts()
- elim_equiv()
- elim_redundant()
- est_full_hmm_with_global_error()
- est_full_hmm_with_prior_prob()
- est_haplo_hmm()
- est_map_haplo_given_genoprob()
- est_pairwise_rf()
- est_pairwise_rf2()
- est_rf_hmm()
- est_rf_hmm_sequential()
- est_rf_hmm_single()
- est_rf_hmm_single_one_parent()
- export_data_to_polymapR()
- export_map_list()
- export_qtlpoly()
- extract_map()
- filter_individuals()
- filter_map_at_hmm_thres()
- filter_missing()
- filter_missing_ind()
- filter_missing_mrk()
- filter_non_conforming_classes()
- filter_segregation()
- find_blocks()
- format_rf()
- generate_all_link_phases_elim_equivalent_haplo()
- generate_all_link_phase_elim_equivalent()
- genotyping_global_error()
- get_cache_two_pts_from_web()
- get_counts()
- get_counts_all_phases()
- get_counts_one_parent()
- get_counts_two_parents()
- get_dosage_type()
- get_full_info_tail()
- get_genomic_order()
- get_ij()
- get_indices_from_selected_phases()
- get_LOD()
- get_ols_map()
- get_ph_conf_ret_sh()
- get_ph_list_subset()
- get_rf_from_list()
- get_rf_from_mat()
- get_states_and_emission_one_parent()
- get_submap()
- get_tab_mrks()
- get_w_m()
- gg_color_hue()
- group_mappoly()
- hexafake.geno.dist()
- hexafake()
- imf_h()
- imf_k()
- imf_m()
- import_data_from_polymapR()
- import_from_updog()
- import_phased_maplist_from_polymapR()
- is.prob.data()
- loglike_hmm()
- ls_linkage_phases()
- make_mat_mappoly()
- make_pairs_mappoly()
- make_seq_mappoly()
- maps.hexafake()
- mds_mappoly()
- merge_datasets()
- merge_maps()
- mf_h()
- mf_k()
- mf_m()
- mp_pallet1()
- mp_pallet2()
- mp_pallet3()
- mrk_chisq_test()
- msg()
- paralell_pairwise_discrete()
- paralell_pairwise_discrete_rcpp()
- paralell_pairwise_probability()
- parallel_block()
- perm_pars()
- perm_tot()
- ph_list_to_matrix()
- ph_matrix_to_list()
- plot.mappoly.homoprob()
- plot.mappoly.prefpair.profiles()
- plot_compare_haplotypes()
- plot_genome_vs_map()
- plot_GIC()
- plot_map_list()
- plot_mrk_info()
- plot_one_map()
- poly_cross_simulate()
- poly_hmm_est()
- prepare_map()
- print_mrk()
- print_ph()
- read_fitpoly()
- read_geno()
- read_geno_csv()
- read_geno_prob()
- read_vcf()
- reest_rf()
- rev_map()
- rf_list_to_matrix()
- rf_snp_filter()
- sample_data()
- segreg_poly()
- select_rf()
- sim_cross_one_informative_parent()
- sim_cross_two_informative_parents()
- sim_homologous()
- solcap.dose.map()
- solcap.err.map()
- solcap.mds.map()
- solcap.prior.map()
- split_and_rephase()
- split_mappoly()
- summary_maps()
- table_to_mappoly()
- tetra.solcap.geno.dist()
- tetra.solcap()
- update_map()
- update_missing()
- update_ph_list_at_hmm_thres()
- v_2_m()
R Codes
- cache_twopts.R
- calc_genoprob.R
- calc_genoprob_dist.R
- calc_genoprob_error.R
- calc_genoprob_one_parent.R
- check_phase_configurations.R
- data.R
- eliminate_redundant.R
- est_map_hmm.R
- export_map_list.R
- export_qtlpoly.R
- filters.R
- find_blocks.R
- get_counts.R
- get_counts_from_web.R
- get_submap.R
- group.R
- haplotype_map_utils.R
- homolog_probs.R
- import_from_polymapR.R
- import_from_updog.R
- loglike_hmm.R
- make_mat.R
- make_pairs.R
- make_seq.R
- marker_info.R
- mds.R
- merge_maps.R
- one_paprent_single_map_hmm.R
- pairwise_rf.R
- plot_genome_vs_map.R
- plot_map_list.R
- poly_cross_simulate.R
- preferential_pairing.R
- prior_dist_hmm.R
- RcppExports.R
- read_fitpoly.R
- read_mappoly.R
- read_mappoly_csv.R
- read_mappoly_prob.R
- read_mappoly_vcf.R
- reestimate_map.R
- reest_map_error.R
- rf_list_to_matrix.R
- segreg_poly.R
- simulation_utils.R
- sim_homologous.R
- single_map_hmm.R
- split_and_rephase.R
- utils.R
- zzz.R
Selected R package: mappoly
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