fung: Fungal Pathogen Data

In StrattonCh/msocc: Package for Fitting and Analyzing Computationally Efficient Multi-scale Occupancy Models

Description

A data set containing detection of a fungal pathogen's DNA measured at each of 20 ponds located in Coconino National Forest, Arizona, USA. At each site, water samples were collected to extract the DNA of Batrachochytrium dendrobatidis (Bd), a fungal pathogen of various species of amphibians. Environmental and ecological variables were also measured at each of the 20 ponds, and are included in this dataset.

Usage

fung

Format

A data frame with 80 rows and 8 variables:

site

location sampled

sample

sample number from site

pcr1

detection (1) or non-dection (0) from first PCR replicate

pcr2

detection (1) or non-dection (0) from second PCR replicate

loadT1

average fungal pathogen load of frogs that tested positive for Bd and were captured during 1st survey

loadT2

average fungal pathogen load of frogs that tested positive for Bd and were captured during 2nd survey

frogs

index of frog density (catch per unit effort)

Bd

prevalence of Bd among frogs captured during 1st or 2nd surveys

Source

Schmidt BR, Kery M, Ursenbacher S, Hyman OJ, and Collins JP (2013) Site occupancy models in the analysis of environmental DNA presence/absence surveys: a case study of an emerging amphibian pathogen. Methods in Ecology and Evolution 4: 646-653.

StrattonCh/msocc documentation built on Dec. 22, 2020, 2:51 a.m.