Files in onemap

Construction of Genetic Maps in Experimental Crosses

R/plot_raw_data.R R/avoid_reverse.R R/draw_map.R R/write_map.R R/draw_map2.R R/permutations.R R/marker_type.R R/rf_2pts.R R/ripple_seq.R R/adjust_rils.R R/group.R R/filters.R R/extract_depth.R R/test_segregation.R R/create_dataset_bins.R R/create_probs.R R/drop_marker.R R/map.R R/read_onemap.R R/group_upgma.R R/combine_onemap.R R/get_info_2pt.R R/write_haplotypes.R R/record.R R/ug.R R/create_depths_profile.R R/return_geno.R R/try_seq.R R/map_func.R R/group_seq.R R/read_mapmaker.R R/overlapping_batches.R R/onemap_read_vcfR.R R/comb_ger.R R/mds_onemap.R R/make_seq.R R/order_seq.R R/find_bins.R R/zzz.R R/cpp_utils.R R/vcf2raw.R R/rf_graph_table.R R/rcd.R R/codif_data.R R/phases.R R/compare.R R/utils.R R/seriation.R R/suggest_lod.R R/seeded_map.R inst/doc/Outcrossing_Populations.R inst/doc/Introduction_R.Rmd inst/doc/Outcrossing_Populations.Rmd inst/doc/Overview.R inst/doc/Introduction_R.R inst/doc/Overview.Rmd inst/doc/Inbred_Based_Populations.Rmd inst/doc/Inbred_Based_Populations.R vignettes/Introduction_R.Rmd vignettes/Outcrossing_Populations.Rmd vignettes/Overview.Rmd vignettes/Inbred_Based_Populations.Rmd man/vcf2raw.Rd man/order_seq.Rd man/print.onemap_bin.Rd man/draw_map.Rd man/kosambi.Rd man/onemap_read_vcfR.Rd man/compare.Rd man/plot.onemap_progeny_haplotypes_counts.Rd man/print.onemap_segreg_test.Rd man/extract_depth.Rd man/rm_dupli_mks.Rd man/print.group.Rd man/create_data_bins.Rd man/plot.onemap_progeny_haplotypes.Rd man/est_map_hmm_out.Rd man/drop_marker.Rd man/print.sequence.Rd man/filter_missing.Rd man/make_seq.Rd man/progeny_haplotypes_counts.Rd man/progeny_haplotypes.Rd man/plot.onemap.Rd man/set_map_fun.Rd man/filter_2pts_gaps.Rd man/map_avoid_unlinked.Rd man/vcf_example_bc.Rd man/find_bins.Rd man/filter_prob.Rd man/add_marker.Rd man/create_depths_profile.Rd man/split_onemap.Rd man/Bonferroni_alpha.Rd man/onemap_example_f2.Rd man/test_segregation_of_a_marker.Rd man/check_data.Rd man/vcf_example_riself.Rd man/map.Rd man/map_save_ram.Rd man/print.group_seq.Rd man/plot_by_segreg_type.Rd man/plot.onemap_segreg_test.Rd man/rf_2pts.Rd man/record.Rd man/draw_map2.Rd man/print.try.Rd man/pick_batch_sizes.Rd man/write_onemap_raw.Rd man/print.onemap.Rd man/mds_onemap.Rd man/remove_inds.Rd man/write_map.Rd man/keep_only_selected_mks.Rd man/empty_onemap_obj.Rd man/ripple_seq.Rd man/check_twopts.Rd man/print.order.Rd man/onemap_example_riself.Rd man/sort_by_pos.Rd man/map_overlapping_batches.Rd man/acum.Rd man/ug.Rd man/combine_onemap.Rd man/split_2pts.Rd man/plot.group.upgma.Rd man/haldane.Rd man/suggest_lod.Rd man/read_onemap.Rd man/select_segreg.Rd man/add_redundants.Rd man/print.rf_2pts.Rd man/seq_by_type.Rd man/mapmaker_example_f2.Rd man/print.group.upgma.Rd man/generate_overlapping_batches.Rd man/try_seq_by_seq.Rd man/create_dataframe_for_plot_outcross.Rd man/create_probs.Rd man/rf_snp_filter_onemap.Rd man/rf_graph_table.Rd man/marker_type.Rd man/vcf_example_out.Rd man/onemap_example_out.Rd man/rcd.Rd man/read_mapmaker.Rd man/group.Rd man/group_upgma.Rd man/parents_haplotypes.Rd man/test_segregation.Rd man/print.compare.Rd man/group_seq.Rd man/onemap_example_bc.Rd man/vcf_example_f2.Rd man/try_seq.Rd man/seriation.Rd man/seeded_map.Rd