lichen: Lichen data from the Current Vegetation Survey

In EZtune: Tunes AdaBoost, Elastic Net, Support Vector Machines, and Gradient Boosting Machines

Description

Data were collected between 1993 and 1999 as part of the Lichen Air Quality surveys on public lands in Oregon and southern Washington. Observations were obtained from 1-acre (0.4 ha) plots at Current Vegetation Survey (CVS) sites. Indicator variables denote the presences and absences of 7 lichen species. Data for each sampled plot include the topographic variables elevation, aspect, and slope; bioclimatic predictors including maximum, minimum, daily, and average temperatures, relative humidity precipitation, evapotranspiration, and vapor pressure; and vegetation variables including the average age of the dominant conifer and percent conifer cover. The data in lichenTest were collected from half-acre plots at CVS sites in the same geographical region and contains many of the same variables, including presences and absences for the 7 lichen species. As such, it is a good test dataset for predictive methods applied to the Lichen Air Quality data.

Usage

lichen

Format

A data frame with 840 observations and 40 variables. One variable is a location identifier, 7 (coded as 0 and 1) identify the presence or absence of a type of lichen species, and 32 are characteristics of the survey site where the data were collected.

There were 12 monthly values in the original data for each of the bioclimatic predictors. Principal components analyses suggested that for each of these predictors 2 principal components explained the vast majority (95.0%-99.5%) of the total variability. Based on these analyses, indices were created for each set of bioclimatic predictors. The variables with the suffix Ave in the variable name are the average of 12 monthly variables. The variables with the suffix Diff are contrasts between the sum of the April-September monthly values and the sum of the October-December and January-March monthly values, divided by 12. Roughly speaking, these are summer-to-winter contrasts.

The variables are summarized as follows:

PlotNum

Identifier of the section of forest from which the data were collected.

LobaOreg

Lobaria oregana (Absent = 0, Present = 1)

LobaPulm

Lobaria pulmonaria (Absent = 0, Present = 1)

NephBell

Nephroma bellum (Absent = 0, Present = 1)

NephHelv

Nephroma helveticum (Absent = 0, Present = 1)

PseuAnom

Pseudocyphellaria anomala (Absent = 0, Present = 1)

PseuAnth

Pseudocyphellaria anthraspis (Absent = 0, Present = 1)

PseuCroc

Pseudocyphellaria crocata (Absent = 0, Present = 1)

EvapoTransAve

Average monthly potential evapotranspiration in mm

EvapoTransDiff

Summer-to-winter difference in monthly potential evapotranspiration in mm

MoistIndexAve

Average monthly moisture index in cm

MoistIndexDiff

Summer-to-winter difference in monthly monthly moisture index in cm

PrecipAve

Average monthly precipitation in cm

PrecipDiff

Summer-to-winter difference in monthly precipitation in cm

RelHumidAve

Average monthly relative humidity in percent

RelHumidDiff

Summer-to-winter difference in monthly relative humidity in percent

PotGlobRadAve

Average monthly potential global radiation in kJ

PotGlobRadDiff

Summer-to-winter difference in monthly potential global radiation in kJ

AveTempAve

Average monthly average temperature in degrees Celsius

AveTempDiff

Summer-to-winter difference in monthly average temperature in degrees Celsius

MaxTempAve

Average monthly maximum temperature in degrees Celsius

MaxTempDiff

Summer-to-winter difference in monthly maximum temperature in degrees Celsius

MinTempAve

Average monthly minimum temperature in degrees Celsius

MinTempDiff

Summer-to-winter difference in monthly minimum temperature in degrees Celsius

DayTempAve

Mean average daytime temperature in degrees Celsius

DayTempDiff

Summer-to-winter difference in average daytime temperature in degrees Celsius

AmbVapPressAve

Average monthly average ambient vapor pressure in Pa

AmbVapPressDiff

Summer-to-winter difference in monthly average ambient vapor pressure in Pa

SatVapPressAve

Average monthly average saturated vapor pressure in Pa

SatVapPressDiff

Summer-to-winter difference in monthly average saturated vapor pressure in Pa

Aspect

Aspect in degrees

TransAspect

Transformed Aspect: TransAspect=(1-cos(Aspect))/2

Elevation

Elevation in meters

Slope

Percent slope

ReserveStatus

Reserve Status (Reserve, Matrix)

StandAgeClass

Stand Age Class (< 80 years, 80+ years)

ACONIF

Average age of the dominant conifer in years

PctVegCov

Percent vegetation cover

PctConifCov

Percent conifer cover

PctBroadLeafCov

Percent broadleaf cover

TreeBiomass

Live tree (> 1inch DBH) biomass, above ground, dry weight.

Source

Cutler, D. Richard., Thomas C. Edwards Jr., Karen H. Beard, Adele Cutler, Kyle T. Hess, Jacob Gibson, and Joshua J. Lawler. 2007. Random Forests for Classification in Ecology. Ecology 88(11): 2783-2792.

EZtune documentation built on Dec. 11, 2021, 9:33 a.m.