Hypericum Perennial Dataset with covariates

Description

Demographic data of Hypericum cumulicola in "Florida rosemary scrub at" Archbold Biological Station (FL, USA). Life cycle, experimental design and data are described in Quintana-Ascencio & Menges (2003). Data contains a subset of individuals from population "bald 1" and annual period "1994-1999". Full dataset can be obtained upon request to the authors (pedro.quintana-ascencio@ucf.edu).

Usage

data(dataIPMpackHypericumCov)

Format

The format is: chr "dataIPMpackHypericumCov"

Details

data-frame with headings:

- id: unique plant id (this file contains only a subset of all individuals)

- bald: population (this subset contains only one population)

- year: transition from t to t+1 (this subset contains only data for 1994-1999)

- fireYear: year when the bald was last burned

- TSLF: time since last fire

- size: length of longest stem in individual (cm) in time t

- ontogeny: recruits vs established individuals in time t (1 = individual was recruited in time t, 0 = already established individual prior to time t, NA = individual not yet recruited in time t)

- fec0: probability of reproduction (0= no flowering, 1 = individual was flowering in time t)

- fec1: number of fruits per plant (NA if fec0 = 0)

- fec2: number of seeds per fruit (NA if fec0 = 0)

- fec3: probability that seeds produced in year t will germinate that year

- fec4: probability of seedling survival prior to the next census

- goSB: probability that seeds produced in natural year t will go into the seedbank

- staySB: probability that seeds will remain in the seedbank from year t to t+1

- cov: annual precipitation in year t (Jan-Dec; mm)

- surv: survival (0 = dead, 1= alive, NAs if not yet recruited)

- sizeNext: length of longest stem in individual (cm) in time t+1

- ontogenyNext: recruits vs established individuals in time t+1 (1 = individual was recruited in time t+1, 0 = already established individual prior to time t+1, NA = individual not yet recruited or dead in t+1)

- covNext: annual precipitation in natural year t+1 (Jan-Dec; mm)

Author(s)

Pedro Quintana-Ascencio & Eric Menges

References

Quintana-Ascencio, Menges & Weekley. 2003. A fire-explicit population viability analyses of Hypericum cumulicola in Florida Rosemary scrub. Conservation Biology 17, p433-449.

Examples

data(dataIPMpackHypericumCov)
print(head(dataIPMpackHypericumCov))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(IPMpack)
Loading required package: Matrix
Loading required package: MASS
Loading required package: nlme
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/IPMpack/dataIPMpackHypericumCov.csv.Rd_%03d_medium.png", width=480, height=480)
> ### Name: dataIPMpackHypericumCov
> ### Title: Hypericum Perennial Dataset with covariates
> ### Aliases: dataIPMpackHypericumCov
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(dataIPMpackHypericumCov)
> print(head(dataIPMpackHypericumCov))
  id bald fireYear initial year TSLF size ontogeny fec0 fec1 fec2     fec3
1  5    1     1967    1994 1994   27    1        1    0   NA   NA 0.001216
2 22    1     1967    1994 1994   27    1        1    0   NA   NA 0.001216
3 33    1     1967    1994 1994   27    1        1    0   NA   NA 0.001216
4 41    1     1967    1994 1994   27    2        1    0   NA   NA 0.001216
5 55    1     1967    1994 1994   27    2        1    0   NA   NA 0.001216
6 42    1     1967    1994 1994   27    2        1    0   NA   NA 0.001216
       fec4       goSB staySB      cov surv sizeNext ontogenyNext  covNext
1 0.1414214 0.08234362  0.672 1481.836    1        6            0 1420.622
2 0.1414214 0.08234362  0.672 1481.836    0       NA           NA 1420.622
3 0.1414214 0.08234362  0.672 1481.836    0       NA           NA 1420.622
4 0.1414214 0.08234362  0.672 1481.836    1        3            0 1420.622
5 0.1414214 0.08234362  0.672 1481.836    1       11            0 1420.622
6 0.1414214 0.08234362  0.672 1481.836    1       13            0 1420.622
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> dev.off()
null device 
          1 
>