Reference

Create

Create tables, validate, and write metadata

create_observation()

Create the observation table

create_location()

Create the location table

create_taxon()

Create the taxon table

create_dataset_summary()

Create the dataset_summary table

create_observation_ancillary()

Create the observation_ancillary table

create_location_ancillary()

Create the location_ancillary table

create_taxon_ancillary()

Create the taxon_ancillary table

create_variable_mapping()

Create the variable_mapping table

write_tables()

Write tables to file

validate_data()

Validate tables against the model

create_eml()

Create EML metadata

Use

Search, read, manipulate, plot, and save data

search_data()

Search published data

read_data()

Read published data

flatten_data()

Flatten a dataset

plot_sample_space_time()

Plot dates and times samples were collected or observations were made

plot_sites()

Plot sites on US map

plot_taxa_abund()

Plot mean taxa abundances per 'observation_id'

plot_taxa_accum_sites()

Plot taxa accumulation by site accumulation

plot_taxa_accum_time()

Plot taxa accumulation through time

plot_taxa_diversity()

Plot diversity (taxa richness) through time

plot_taxa_occur_freq()

Plot taxon occurrence frequencies

plot_taxa_rank()

Plot taxa ranks

plot_taxa_shared_sites()

Plot number of unique taxa shared across sites

save_data()

Save a dataset

Convert

Convert to other model formats

convert_to_dwca()

Convert a dataset to the Darwin Core Archive format

Helpers

Misc. functions

calc_geo_extent_bounding_box_m2()

Calculate geo_extent_bounding_box_m2 for the dataset_summary table

calc_length_of_survey_years()

Calculate length_of_survey_years for the dataset_summary table

calc_number_of_years_sampled()

Calculate number_of_years_sampled for the dataset_summary table

calc_std_dev_interval_betw_years()

Calculate std_dev_interval_betw_years for the dataset_summary table

annotation_dictionary()

Annotations of published data

Example data

Example data

ants_L0_flat

Joined and flat version of EDI data package knb-lter-hfr.118.33

ants_L1

The ecocomDP (L1) version of EDI data package knb-lter-hfr.118.33