Files in k-hench/GenomicOriginsScripts

Provides the R scripts for the paper "Ancestral variation, hybridization and modularity fuel a marine radiation"

LICENSE.md R/aaa.R R/data.R R/functions_SF1.R R/functions_SF10.R R/functions_SF11.R R/functions_SF12.R R/functions_SF13.R R/functions_SF14.R R/functions_SF15.R R/functions_SF4.R R/functions_SF5.R R/functions_SF9.R R/functions_f1.R R/functions_f2.R R/functions_f3.R R/functions_f4.R R/functions_f5.R R/functions_f5_cross_topo.R R/functions_f5_plotting.R R/functions_f5_post_review.R R/functions_f6.R R/functions_general.R R/functions_tables.R R/project_config.R README.md man/add_gpos.Rd man/add_spec_drawing.Rd man/adm_plot.Rd man/anno_pair_flag.Rd man/as_multirow.Rd man/ax_scl.Rd man/bammplot_k.Rd man/clr.Rd man/clr2.Rd man/clr_below.Rd man/clr_genes.Rd man/clr_loc.Rd man/collapse_peaks.Rd man/conditional_highlight.Rd man/conditional_rotate.Rd man/cross_spec.Rd man/custom_annoplot.Rd man/darken.Rd man/data_amdx.Rd man/dist_tibble.Rd man/distances_tree.Rd man/dot-onAttach.Rd man/export_2_latex.Rd man/f_width.Rd man/f_width_half.Rd man/fish_plot.Rd man/fish_plot2.Rd man/fll_fun.Rd man/fll_n.Rd man/fst_bar_row_run.Rd man/generic_hamlet_img.Rd man/geom_hypo_grob2.Rd man/getPofZ.Rd man/get_cc.Rd man/get_clr.Rd man/get_dist.Rd man/get_dxy.Rd man/get_fst.Rd man/get_fst_fixed.Rd man/get_fst_summary_data.Rd man/get_genes.Rd man/get_gxp.Rd man/get_gxp_and_geva.Rd man/get_gxp_both_models.Rd man/get_gxp_long.Rd man/get_isolated_topos.Rd man/get_msmc.Rd man/get_n_above.Rd man/get_n_total.Rd man/get_neighbour_topos.Rd man/get_percentile.Rd man/get_pi.Rd man/get_random_fst.Rd man/get_twisst_data.Rd man/grid_piece_x.Rd man/gxp_importer.Rd man/hypo_anno_l_lwd.Rd man/import_geva_data.Rd man/import_gxp_data.Rd man/import_tree.Rd man/is_isolated.Rd man/join_list.Rd man/lab2spec.Rd man/label_spacer.Rd man/lighten.Rd man/loc_names.Rd man/make_faint_clr.Rd man/match_twisst_files.Rd man/min_dist.Rd man/network_layout.Rd man/no_title.Rd man/outlr_clr.Rd man/pca_plot.Rd man/pca_plot_no_fish.Rd man/plot_clr.Rd man/plot_curtain.Rd man/plot_fish.Rd man/plot_fish2.Rd man/plot_fish_lwd.Rd man/plot_fish_zoom.Rd man/plot_fishes_location.Rd man/plot_fst_poptree.Rd man/plot_leg.Rd man/plot_loc.Rd man/plot_lwd.Rd man/plot_network.Rd man/plot_outl_tree.Rd man/plot_outl_tree_s.Rd man/plot_pair_run.Rd man/plot_panel_anno.Rd man/plot_panel_delta_dxy.Rd man/plot_panel_dxy.Rd man/plot_panel_fst.Rd man/plot_panel_gxp.Rd man/plot_panel_twisst.Rd man/plot_size.Rd man/plot_text_size.Rd man/plot_text_size_small.Rd man/plot_tree.Rd man/pop_levels.Rd man/prep_data.Rd man/process_input.Rd man/project_case.Rd man/project_inv_case.Rd man/read_sc.Rd man/refactor.Rd man/refactor_run.Rd man/reformat_run_name.Rd man/rescale_fst.Rd man/reverselog_trans.Rd man/root_hamlets.Rd man/shps.Rd man/sp_labs.Rd man/sp_names.Rd man/summarise_model.Rd man/summarize_dxy.Rd man/summarize_fst.Rd man/theme_gradient_bg_x.Rd man/theme_hyb.Rd man/theme_panels.Rd man/whisker_points.Rd