.nonzero | Helper function to compute the elements in g0 that have no zero values.The function is taken from the Ringo package |

A-class | Class for the A set of the BAM diagram |

adj_mat | adj_mat: Function to compute the adjacency matrix of an area. |

bam | Class 'bam' digram |

bam-class | Class 'bam' digram |

bam-method | Predict method of the package 'bamm'. |

bam_clusters | bam_clusters: Function to estimate the connectivity of suitable areas |

bam_sim | bam_sim: Simulate dispersal dynamics using the set B of the BAM framework. |

bam_ssim | bam_ssim: Simulate dispersal dynamics using the set B of the BAM framework. |

biodiversity_index | Class 'bioindex' |

biodiversity_index_sparse | Class 'bioindex_sparse' |

bioindex | Class 'bioindex' |

bioindex-class | Class 'bioindex' |

bioindex_sparse | Class 'bioindex_sparse' |

bioindex_sparse-class | Class 'bioindex_sparse' |

community-class | Class 'community_sim' digram |

community_bam | Class 'community_sim' digram |

community_sim | community_bam: Community 'bamm' |

community_sim-class | Class 'community_sim' digram |

coordinates-class | S4 classes to organize data and results of 'bamm' objects |

csd | Class 'csd' |

csd-class | Class 'csd' |

csd_estimate | csd_estimate: Estimate the connectivity suitability and dispersal plot |

csim2pam | csim2pam: Converts community simulation to a Presence Absence Matrix (PAM) |

diversityrange | Class 'diversity_range' |

diversity_range | Class 'diversity_range' |

diversity_range-class | Class 'diversity_range' |

diversity_range_analysis | range_diversity_analysis: diversity analysis |

eigen_bam | eigen_bam: Compute the Eigen system of two bam objects |

g_area | S4 classes to organize data and results of 'bamm' objects |

g_area-class | S4 classes to organize data and results of 'bamm' objects |

jaccard | jaccard: Estimates the Jaccard index for comparing two binary maps |

leaflet | Class 'leaflet' leaflet |

leaflet-class | Class 'leaflet' leaflet |

M-class | Class for the M set of the 'bamm' diagram |

model2sparse | model2sparse: Converts a niche model into a diagonal sparse matrix |

models2pam | models2pam: Converts binary rasters to a PAM |

null_dispersion_field_distribution | null_dispersion_field_distribution: Null distribution of the dispersion field |

occs2sparse | occs2sparse: Converts occurrence data into a sparse matrix object |

PAM | Class 'pam' Presence-Absence Matrix |

pam | Class 'pam' Presence-Absence Matrix |

pam-class | Class 'pam' Presence-Absence Matrix |

pam2bioindex | pam2bioindex: PAM to biodiversity index |

pam2richness | pam2richness: Converts Presence Absence Matrix (pam object) to richness raster |

permute_pam | permute_pam: Function to permute a Presence-Absence-Matrix. |

plot-method | Plot method for objects of class diversity_range 'bamm'. |

predict | Predict method of the package 'bamm'. |

predict-method | Predict method of the package 'bamm'. |

sdm_sim | sdm_sim: Simulate single species dispersal dynamics using the BAM framework. |

setA | Class for the A set of the BAM diagram |

setA-class | Class for the A set of the BAM diagram |

setM | Class for the M set of the 'bamm' diagram |

setM-class | Class for the M set of the 'bamm' diagram |

shape2Grid | shape2Grid: Function to create a grid given a spatial polygon |

show-method | Show information in setA class 'bamm'. |

sim2Animation | sim2Animation: Animate BAM simulation object. |

sim2Raster | sim2Raster: Convert a BAM simulation object to RasterStack |