Standardize Fisheries Dependent and Independent Datasets

Pulls and standardizes fisheries independent and dependent datasets from the NEFSC survey and observer programs using ROracle. The function also can open a local CSV file and standardize the output.

Usage

standardize_fisheries_data(
  data_type,
  channel = channel,
  csv,
  csv_columns,
  yr_range
)

Arguments

data_type

type of data to be standardize. Must be one of the following: 'NESurveys', 'NEObserver', or 'CSV'

channel

connection to remote databases. Only required for 'NESurveys' or 'NEObserver'

csv

path to local CSV file

csv_columns

Column names in csv file in the following order: 'towid', 'longitude', 'latitude', 'date', 'count (can be count/abundance/density, etc)', 'name'. Date must be in a format that can be converted to POSIX with as.POSIXct

yr_range

A vector with length of 2 indicating the start and end, inclusive, year of the desired time series

Value

a data frame. It is recommended to save this as a csv file as pulling survey and observer datasets does take time