Man pages for Grelot/geogendivr
Geographic Gene Diversity in R
| align_sequence | function to align sequences with MUSCLE |
| buffer_pts | function to get buffer spatial polygon around RLS point... |
| buffer_pts_within | BOLD spatial points within buffer of RLS spatial points |
| coords2SpatialPoints | convert a list of lat/lon coordinates into SptialPoints |
| fishbase_name_species_bold | Validates species names of BOLD specimen and returns synonyms... |
| nuc_diversity_alignment | function to calculate div nuc |
| number_sequences_by_points | number of bold sequence into a buffer around a RLS point |
| pipe | Pipe operator |
| plot_reefish_survey | Plot the world map with location of surveys in Reef Life... |
| prepare_bold_res | Prepare raw BOLD specimen + sequence dataset |
| reefishSurveyEnvSocio | Reef Life Survey social and environmental variables metadata |
| reefishSurveySpecies | Reef life Survey spatial fish data extract : species by site... |
| requestPomacanthidaeBOLD | BOLD (Barcode of Life) specimen + sequence data with matching... |
| select_reefish_species | Select sequences and species from BOLD which are in Reef Life... |
| spatialpoints_bold | Function to transform curated BOLD dataframe into sp... |
| species_nucleotide_diversity | nucleotide diversity by species applied to all RLS pts |
| species_nucleotide_diversity_pts | nucleotide diversity by species arguments: * infobold a... |
