Dianthus: Patch-level data for Carthusian pink (_Dianthus...

In hhwagner1/LandGenCourse: Interface for course "Landscape Genetic Data Analysis with R"

Patch-level data for Carthusian pink (Dianthus carthusianorum)

Description

Site-level data from Rico et al. 2014.

Usage

Dianthus

Format

An sf object with point data for 65 populations and 31 variables, in the following slots:

proj4string

CRS("+init=epsg:31468")

bbox

Boundary box: spatial extent

data

Patch-level variables:

patch

Patch ID

samples

Sample size

pop09

Population size (2009) in five categories: "0": absent; "1": 1 - 3; "2": 4 - 39; "3": 40 - 99; "4": 100 or more. In most cases, all individuals were sampled for categories "1" and "2".

System

Grazing system: "East", "South", "West", NA (ungrazed)

intensity

Grazing intensity: "Continuous": grazed 3 - 5 times throughout growing season; "Intermittent": grazed only some years or only late in season; "Ungrazed"

Ha

Patch size in ha

Elements2008.4

Number of dynamic structural element types present in 2008 (rock debris, animal burrows, ant hills, erosion)

Dc.89

Species presence/absence in 1989

Dc.09

Species presence/absence in 2009

I

Shannon diversity index

Ho

Observed heterozygosity

He

Expected heterozygosity

A

Rarefied allelic richness

FIS

Inbreeding coefficient

Eu_pj

Connectivity index Si, calculated based on Euclidean distances and using binary source patch weights (species presence/absence)

Eu_Aj

Connectivity index Si, calculated based on Euclidean distances and using patch weights proportional to patch size (if species present)

Eu_Nj

Connectivity index Si, calculated based on Euclidean distances and using patch weights proportional to the rank of PopSize (ranging from 0 - 4)

Shecte_pj

Connectivity index Si, calculated based on the number of continuously grazed patches between source and focal patch, using binary source patch weights (species presence/absence)

Shecte_Aj

Connectivity index Si, calculated based on the number of continuously grazed patches between source and focal patch, using patch weights proportional to patch size (if species present)

Shecte_Nj

Connectivity index Si, calculated based on the number of continuously grazed patches between source and focal patch, using patch weights proportional to the rank of PopSize (ranging from 0 - 4)

Sheint_pj

Connectivity index Si, calculated based on the number of continuously or intermittently grazed patches between source and focal patch, using binary source patch weights (species presence/absence)

Sheint_Aj

Connectivity index Si, calculated based on the number of continuously or intermittently grazed patches between source and focal patch, using patch weights proportional to patch size (if species present)

Sheint_Nj

Connectivity index Si, calculated based on the number of continuously or intermittently grazed patches between source and focal patch, using patch weights proportional to the rank of PopSize (ranging from 0 - 4)

Shenu_pj

Connectivity index Si, calculated based on whether or not source and focal patch are in the same grazing system, using binary source patch weights (species presence/absence)

Shenu_Aj

Connectivity index Si, calculated based on whether or not source and focal patch are in the same grazing system, using patch weights proportional to patch size (if species present)

Shenu_Nj

Connectivity index Si, calculated based on whether or not source and focal patch are in the same grazing system, using patch weights proportional to the rank of PopSize (ranging from 0 - 4)

Forest_pj

Connectivity index Si, calculated based on Euclidean distance but only if there is no forest between source and focal patch, using binary source patch weights (species presence/absence)

Forest_Aj

Connectivity index Si, calculated based on Euclidean distance but only if there is no forest between source and focal patch, using patch weights proportional to patch size (if species present)

Forest_Nj

Connectivity index Si, calculated based on Euclidean distance but only if there is no forest between source and focal patch, using patch weights proportional to the rank of PopSize (ranging from 0 - 4)

Longitude

Longitude: CRS("+init=epsg:4326")

Latitude

Latitude: CRS("+init=epsg:4326")

geometry

Spatial coordinates:

Easting (Gauss-Krueger GK4)

Northing (Gauss-Krueger GK4)

References

Rico, Y., Holderegger, R., Boehmer, H. J. and Wagner, H. H. (2014), Directed dispersal by rotational shepherding supports landscape genetic connectivity in a calcareous grassland plant. Mol Ecol, 23: 832–842. doi:10.1111/mec.12639

hhwagner1/LandGenCourse documentation built on Feb. 17, 2024, 4:42 p.m.