Man pages for k-hench/fftidy
Provides the R scripts for inner capuchin dominance analysis of the food for thought project
| assign_overlaps_acc | Assign the overlap ID of a timestamp |
| back_convert_simulation | Convert Simulation results back to data format |
| bb | Define project bounding box |
| bic_proj | Project UTM crs |
| canal | Load Panama Canal |
| cent_plotter | plot all centroids within a tibble-column of sf-objects |
| central_point | Central point (non-sfversion) |
| central_point_crs | Set Projection of Central Point of Area Covered by Tracks |
| central_point_sf | Get central point of area covered by tracks (as sf object) |
| centroid_of_points | combine several sf-points and create a joint centroid |
| clr_accent | Highlighter Color |
| clr_neighbor | The basic color scheme for pair_ids |
| clr_neighbor_alpha | The semi-transparent color scheme for pair_ids |
| clr_set_alpha | The transparent project color scheme |
| clr_set_base | The basic color scheme for the sample IDs |
| clr_set_light | The light project color scheme |
| clr_set_samples | The de-saturated project color scheme |
| clr_water | Water Color |
| color_column | Color entire column based on sample_id |
| compare_all_models | function to compare variogram with all ML model fits (initial... |
| compare_n_best_models | function to compare variogram with the n best ML model fits... |
| complex_distance | Compute pair wise distances within time bins |
| count_no_na | Count all non-NAs |
| crayon_set_clr | Style text with crayon |
| crp | crop a sf obj to the project bounding box |
| data_extend | Extend tracking data with computed metrics |
| data_fft | Load FFT tracking data |
| df_as_sf | create the convex hull of a two column tibble with lat long... |
| dipteryx | Load Locations of Dipteryx |
| display_sample_clr | Display sample colors |
| dtim | extract the time of the day from a date-time (as numeric... |
| encounter_long | Pivot encointer table to long format |
| fft_case | Project case |
| fft_case_inv | Inverted project case |
| fft_f_width | Default figure width (double column) |
| fft_f_width_half | Default figure width (single column) |
| fft_lwd | Default plot linewidth |
| fft_plot_size | Default plot size |
| fft_text_size | Default plot font size |
| fft_text_size_small | Small plot font size |
| fit_ouf | function to create and fit a Ornstein-Uhlenbeck-F model to a... |
| gatun | Load Gatun Lake Outline |
| geom_hypo_grob | Provides the grob geom |
| get_akde | function for automatizing autocorrelated kernel density... |
| get_akde_aligned | Load ctmm based AKDEs grouped by field season |
| get_akde_maual | Load ctmm based AKDEs by Sample ID |
| get_ci_ouf | function for OUF specific parameters (tau2) |
| get_ci_univ | universal function (works for both OU & OUF) |
| get_kriged_occurrence_maual | Load ctmm based kriged occurrences by Sample ID |
| get_param_estimate | Get the parameter estimates from a ctmm fitted model |
| get_pw_dists | given a table with synchronous positions, compute all... |
| get_var_fit_ou | Extract a OU fitted parameter from a ctmm object |
| get_var_fit_ouf | Extract a OUF fitted parameter from a ctmm object |
| get_var_fit_raw | Extract a fitted parameter from a ctmm object |
| guide_use | Helper for Dipteryx density plot guides |
| hull_plotter | plot all hulls within a tibble-column of sf-objects |
| hull_tib | create the convex hull of a two column tibble with lat long... |
| hypo_geom_grob_custom | The custom grob geom |
| idx_graph | convert an igraph-graph into a tidygraph tbl_graph, annotate... |
| island | Load Isla Barro Colorado Outline |
| m2_to_ha | convert SI units (m2 -> ha) |
| merge_sf_columns | merge multiple sf columns |
| mod_tab | wrapper to get sigma, tauH, tauF, and speed estimates of a... |
| neighbor_ids | Vector of all neighbor-pair_ids |
| neighboring_samples | Neighboring groups |
| on_any_overlap | Determine if timepoint x is on any overlap |
| outer_hull | Get area covered by tracks |
| outer_hull_sf | sf version of area covered by tracks |
| pan_detail | Load clipped Panama Coastline |
| parse_cis | functions to parse estimated model parameters (mu & tau) from... |
| p_init | initialize a field-trip specific base-plot |
| p_init_hull | initialize a field-trip specific base-plot (with individuals... |
| p_init_voronoi | Base plot for voronoi layers |
| plot_ctm | plot two model (original guess and modified) in context of... |
| plot_svf | modified plot.svf from ctmm |
| plot_svfs | function to create a variogram plot pair (initial close up... |
| plot_svfs_single | function to plot a variogram in the correct color of athe... |
| plot_svf_vs_model | function to compare variogram with a model fit (initial close... |
| plot_variogram | modified plot.variogram from ctmm |
| read_all_ml_fits | Load all ctmm fitted models |
| sample_as_stars | Convert FFT data to Stars object |
| sample_ids | The sample IDs |
| sample_ids_short | Abbreviations of sample IDs |
| samples_short | Reference vector short to long sample ID |
| sample_years | The sample year-class |
| separate_mod_tab | separate ctmm model estimates from units |
| sf_raster_empty | Initialize empty Stars object |
| sim_to_sf | Convert simulated tracks into a sf-object |
| simulate_id | Simulate movement track for a particular Sample |
| s_to_day | convert SI units (s -> day) |
| styler_id | Color cell of of column by sample id |
| styler_id_conditional | Color table cell based on sample id |
| subs | subset a list of lists by a common index (the n_th object of... |
| svf_to_tibble | convert a svf to a tibble |
| table_theme | Basic table theme |
| table_total | Total a Column and ignore NAs |
| tibble_to_sf | turn a tibble with a lat and long column into a set sf points |
| update_model | manipulate ctmm model and output new model alongside original... |
| update_tau | manipulate ctmm model tau entry |
| wgs | The WGS proj string |
| wide_to_distmat | transform a wide tibble with pair-wise distances into a... |
| xyz_d | compute delta XYZ of accelerometer data |
| xyz_get | get XYZ from accelerometer data |
