Build Graphs for Landscape Genetics Analysis

add_nodes_attr | Add attributes to the nodes of a graph |

check_merge | Check whether the option 'nomerge' was used when building the... |

compar_r_fisher | Compare two correlation coefficients obtained from different... |

compute_graph_modul | Compute modules from a graph by maximising modularity |

compute_node_metric | Compute graph-theoretic metrics from a graph at the node... |

convert_cd | Fit a model to convert cost-distances into Euclidean... |

data_ex_genind | data_ex_genind genetic dataset |

data_ex_gstud | data_ex_gstud genetic dataset |

data_ex_loci | data_ex_loci genetic dataset |

data_simul_genind | data_simul_genind genetic dataset |

data_tuto | data_tuto : data used to generate the vignette |

deg2rad | Convert degrees to radians |

df_to_pw_mat | Convert an edge-list data.frame into a pairwise matrix |

dist_gc_hvs | Calculate the Great-Circle distance between two points using... |

dist_gc_slc | Calculate the Great-Circle distance between two points using... |

dist_gc_vicenty | Calculate the Great-Circle distance between two points using... |

dist_great_circle | Compute the Great Circle distance between two points |

dist_max_corr | Compute the distance at which the correlation between genetic... |

genepop_to_genind | Convert a GENEPOP file into a genind object |

gen_graph_indep | Create an independence graph of genetic differentiation from... |

gen_graph_thr | Create a graph of genetic differentiation using a link weight... |

gen_graph_topo | Create a graph of genetic differentiation with a specific... |

genind_to_genepop | Convert a genind object into a GENEPOP file |

genind_to_structure | Convert a genind object into a STRUCTURE file |

get_graphab | Download Graphab if not present on the user's machine |

get_graphab_linkset | Get linkset computed in the Graphab project |

get_graphab_linkset_cost | Get cost values associated with a linkset in a Graphab... |

get_graphab_metric | Get metrics computed at the node in the Graphab project |

get_graphab_raster_codes | Get unique raster codes from a Graphab project |

gini_coeff | Compute Gini coefficient from a numeric vector |

g_percol | Prune a graph using the 'percolation threshold' method |

graphab_capacity | Computes custom capacities of patches in the Graphab project |

graphab_corridor | Computes corridors from least-cost paths already computed in... |

graphab_graph | Create a graph in the Graphab project |

graphab_interpol | Creates a raster with interpolated connectivity metric values... |

graphab_link | Create a link set in the Graphab project |

graphab_metric | Compute connectivity metrics from a graph in the Graphab... |

graphab_modul | Create modules from a graph in the Graphab project |

graphab_pointset | Add a point set to the Graphab project |

graphab_project | Create a Graphab project |

graphab_project_desc | Describe the objects of a Graphab project |

graphab_to_igraph | Create landscape graphs from Graphab link set |

graph_modul_compar | Compare the partition into modules of two graphs |

graph_node_compar | Compare the local properties of the nodes from two graphs |

graph_plan | Create a graph with a minimum planar graph topology |

graph_plot_compar | Visualize the topological differences between two spatial... |

graph_to_df | Convert a graph into a edge list data.frame |

graph_topo_compar | Compute an index comparing graph topologies |

graph_to_shp | Export a spatial graph to shapefile layers |

gstud_to_genind | Convert a file from 'gstudio' or 'popgraph' into a genind... |

harm_mean | Compute the harmonic mean of a numeric vector |

kernel_param | Compute dispersal kernel parameters |

link_compar | Compare two link sets created in a Graphab project |

loci_to_genind | Convert a loci object into a genind object |

mat_cost_dist | Compute cost distances between points on a raster |

mat_gen_dist | Compute a pairwise matrix of genetic distances between... |

mat_geo_dist | Compute Euclidean geographic distances between points |

mat_pw_dps | Compute a pairwise genetic distance matrix between... |

mat_pw_fst | Compute a pairwise FST matrix between populations |

mypalette | Vector of custom colors |

patch_areas | Extract patch areas from a categorical raster |

plot_graph_lg | Plot graphs |

plot_w_hist | Plot histograms of link weights |

pop_gen_index | Compute population-level genetic indices |

pop_rare_gen_index | Compute population-level rarefied genetic indices with ADZE... |

pts_pop_ex | pts_pop_ex : details on simulated populations |

pts_pop_simul | pts_pop_simul : details on simulated populations |

pw_mat_to_df | Convert a pairwise matrix into an edge-list data.frame |

reorder_mat | Reorder the rows and columns of a symmetric matrix |

sample_raster | Sample points or patches on a categorical raster layer |

sc01 | Scaling function |

scatter_dist | Plot scatterplots of genetic distance vs landscape distance |

scatter_dist_g | Plot scatterplots of distances to visualize the graph pruning... |

structure_to_genind | Convert a file in STRUCTURE format into a genind object |

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