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| assign_defaults | Assign default values to a track object |
| assign_values | Assign value to track property |
| check_highlight_sectors | Check highlighted sectors |
| cluster_marker_depths | Cluster marker depths data |
| configure_backgrounds | Configure sector background colors |
| configure_track | Configure track data from default values |
| convert_to_kb | Convert position to Kb |
| convert_to_mb | Convert position to Mb |
| create_palette | Create bias color palette |
| create_track_data | Create track data |
| detect_chromosomes | Detect chromosomes |
| draw_barplot | Draw a barplot for a metric |
| draw_boxplot | Draw a boxplot for a metric |
| draw_circos | Draw genome metrics in a circular layout |
| draw_circos_track | Plot a circos track |
| draw_density | Draw density for a metric |
| draw_distrib | Draw a tile plot for radsex "distrib" results |
| draw_manhattan_plot | Draw genome metrics in a manhattan plot |
| draw_manhattan_track | Plot a manhattan track |
| draw_marker_depths | RADSex marker depths plot |
| draw_region | Draw genome metrics for a specified genomic region |
| draw_region_track | Plot a region track |
| drop_columns | Drop columns from a data frame |
| generate_color_palette | Generate a color palette for "distrib" plot |
| generate_x_scale | Generate x-axis scale |
| generate_y_scale | Generate y-axis scale |
| get_contig_lengths_from_data | Get contig lengths from genome metrics data |
| load_chromosome_names | Load chromosome names |
| load_genome_metrics | Load a genome metrics data file |
| load_group_info | Load group info |
| load_marker_depths | Load a standard table file |
| load_marker_distribution | Load a marker distribution table |
| load_table | Load a standard table file |
| manhattan_bg_colors | Assign color to manhattan background data |
| metric | Create a metric object |
| multi_metrics_track | Create a track object with multiple metrics |
| open_output_device | Open output device |
| parse_region | Parse region |
| plot_circos | Plot genome metrics in a circular layout |
| plot_manhattan | Plot genome metrics in a manhattan plot |
| plot_region | Plot genome metrics for a specificied genomic region |
| radsex_depth | Plot the results of radsex "depth" analysis |
| radsex_distrib | Plot the results of radsex "distrib" analysis |
| radsex_freq | Plot the results of radsex "freq" analysis |
| radsex_map_circos | RADSex circos plot |
| radsex_map_manhattan | RADSex manhattan plot |
| radsex_map_region | RADSex region plot |
| radsex_marker_depths | Plot the results of radsex "subset", "signif", or "process" |
| read_comments | Parse comment lines in an input file |
| single_metric_track | Create a track object with a single metric |
| track | Create a track object |