ifcb_get_trophic_type: Get Trophic Type for a List of Plankton Taxa

In iRfcb: Tools for Managing Imaging FlowCytobot (IFCB) Data

Get Trophic Type for a List of Plankton Taxa

Description

This function matches a specified list of taxa with a summarized list of trophic types for various plankton taxa from Northern Europe (data sourced from ⁠SMHI Trophic Type⁠).

Usage

ifcb_get_trophic_type(taxa_list = NULL, print_complete_list = FALSE)

Arguments

taxa_list	A character vector of scientific names for which trophic types are to be retrieved.
print_complete_list	Logical, if TRUE, prints the complete list of summarized trophic types.

Details

If there are multiple trophic types for a scientific name (i.e. AU and HT size classes), the summarized trophic type is "NS".

Value

A character vector of trophic types corresponding to the scientific names in taxa_list, or a data frame containing all taxa and trophic types available in the ⁠SMHI Trophic Type⁠ list. The available trophic types are autotrophic (AU), heterotrophic (HT), mixotrophic (MX) or not specified (NS).

Examples

# Example usage:
taxa_list <- c("Acanthoceras zachariasii",
               "Nodularia spumigena",
               "Acanthoica quattrospina",
               "Noctiluca",
               "Gymnodiniales")

ifcb_get_trophic_type(taxa_list)

iRfcb documentation built on April 16, 2025, 1:09 a.m.