agaricales_enrich: Sample data set of MyCoPortal records

In hjsimpso/fungarium: An R package for enabling the use of fungaria collection data in comprehensive trait analyses

Sample data set of MyCoPortal records

Description

Sample data set of fungal records downloaded from the MyCoPortal (https://mycoportal.org) on Dec 9, 2021. Downloaded as Darwin core tab-delimited file in UTF-8 encoding. Includes Agaricales records from the United States. Taxon names updated using fungarium::taxon_update. Fire-associated enrichment calculated using fungarium::find_trait and fungarium::enrichment

Usage

agaricales_enrich

Format

A data frame with:

new_full_name

name of enrichment variable

freq

Numeric. Number of records in the full dataset

trait_freq

Numeric. Number of records in the trait dataset

trait_ratio

Numeric. trait_freq/freq

coll_blanks

Numeric. Number of total records with blank collector info.

blanks_bias

Numeric. Proportion of total records that have blank collector info.

coll_blanks_t

Numeric. Number of trait records with blank collector info.

blanks_bias_t

Numeric. Proportion of trait records that have blank collector info.

max_bias

Numeric. Max proportion of total records associated with one collector group.

coll_groups

Numeric. Number of unique collector groups for total records.

max_bias_t

Numeric. Max proportion of trait records associated with one collector group.

coll_groups_t

Numeric. Number of unique collector groups for trait records.

new_kingdom

kingdom classification based on the new scientific name

new_phylum

phylum classification based on the new scientific name

new_class

class classification based on the new scientific name

new_order

order classification based on the new scientific name

new_family

family classification based on the new scientific name

new_genus

genus associated with the new scientific name

new_species

canonical species name based on the new scientific name. This is useful for getting the species name for varieties or sub-species, which will have the full variety or subspecies names listed for "new_full_name".

Source

https://mycoportal.org

hjsimpso/fungarium documentation built on Aug. 23, 2023, 3:59 p.m.