Package index • CheckEM

Functions for data formatting

Essential functionality for formatting stereo-video annotation

clean_names(): Standardise Column Names in a Data Frame

create_cti(): Create Community Temperature Index as per Day et al. 2018

standardize_tibble(): Standardize Column Names and Types in a Tibble

has_special_characters(): Check if a String Contains Special Characters

read_metadata(): Read Metadata

read_points(): Read Point Data from EventMeasure files (_Points.txt)

read_counts(): Read Count Data from Generic Count Data (_Count.csv)

read_TM(): Read .txt Exports from SeaGIS TransectMeasure

find_lw(): Retrieve Bayesian Length-Weight Equation from FishBase

find_tl(): Retrieve Trophic Level and Standard Error from FishBase

plot_transformations(): Plot Basic Transformations of Predictor Variables for GAM Modelling

read_em_length(): Read EventMeasure length and 3D point data (_3DPoints.txt & _Lengths.txt)

read_gen_length(): Read "Generic" length data

read_periods(): Read Period Data from EventMeasure files (_Period.txt)

expand_life_history(): Expand Life-History Data Frame for Species and Regions

create_min_max(): Calculate Minimum and Maximum Size Limits for Fish Species

load_rds_from_github(): Load an RDS File from a Private GitHub Repository

add_zeros_count(): Add in zeros for deployments not present in the count data

add_zeros_length(): Add in zeros for deployments not present in the length data

Shiny App

Functions for shiny app

runCheckEM(): Run the CheckEM Shiny App Locally

GlobalArchive API

Essential functionality for accessing data through the GlobalArchive API

ga_api_set_token(): Set GlobalArchive API Token

ga_api_all_data(): Retrieve all Data from a synthesis using the GlobalArchive API

ga_api_count(): Retrieve Count Data from the GlobalArchive API

ga_api_habitat(): Retrieve Habitat Data from the GlobalArchive API

ga_api_length(): Retrieve Length Data from the GlobalArchive API

ga_api_metadata(): Retrieve Metadata from the GlobalArchive API

ga_api_species_list(): Retrieve Species List from the Global Archive API

ga_api_benthic_list(): Retrieve Benthic Species List from the Global Archive API

Investigating maximum sizes of fish

Functions to plot and investigate size frequency and maximum sizes of fish

plot_species_hdi(): Plot length frequency histogram with High Density Interval

hdi_table(): hdi_table