The 'single_cover_value' function in the 'auplotsR' package calculates Vegetation Cover Values for particular Growth Form Types and/or Height Thresholds per Site from Raw AusPlots Vegetation Point Intercept data. The 'growth_form_table' function can also be used to calculate Cover Values for all Vegetation Growth Form Types; however, 'single_cover_value' can perform these computations for:
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Examples of the use of the 'single_cover_value' function to compute Cover Values for particular Vegetation Growth Form Types and/or Height Thresholds per Site are presented below. Examples of how to manipulate, display, and use the data generated by the 'single_cover_value' function can be found in TERN’s DSDP ‘ECOSYSTEM SURVEILLANCE (AusPlots) TUTORIAL: UNDERSTANDING AND USING THE ‘ausplotsR’ PACKAGE AND AusPlots DATA’ Tutorial. Cover values (for particular vegetation growth form types and/or height thersholds) are computed for the full set of vegetation point intersect data currently available at AusPlots. The list of data frames containing information for all currently available AusPlots sites (i.e. the 'AP.data' list) was previously created using the `get_ausplots` function (see the 'Obtaining AusPlots data: 'get_ausplots' function' Step-by-Step Guide; we use the list created in Example 4). The resulting 'Vegetation Cover (by Growth Form Type and/or Height)' data frames can be enriched with additional information as seen in the 'Manipulating AusPlots data II: Merging data frames' Step-by-Step Guide. The examples presented below cover different scenarios for sub-setting the input vegetation point intercept data frame prior to the calculation of the required vegetation cover values. Specifically, we explore how compute cover values: (1) sub-setting only by Height, (2) sub-setting only by Taxonomy, and (3) sub-setting by both Height and Taxonomy. We Combine the outputs of a single type (i.e. Height or Growth Form) into a Single Data Frame.
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AP.data.VC.gt0 = single_cover_value(AP.data$veg.PI, by.growth_form=FALSE, min.height=0)
class(AP.data.VC.gt0)
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## [1] "data.frame"
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AP.data.VC.gt2 = single_cover_value(AP.data$veg.PI, by.growth_form=FALSE, min.height=2)
head(AP.data.VC.gt0)
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## site_unique percentCover
## 1 NSABBS0005-58582 59.50
## 2 NSABBS0006-58557 64.06
## 3 NSABHC0001-53596 26.51
## 4 NSABHC0002-53597 30.10
## 5 NSABHC0003-53598 25.29
## 6 NSABHC0004-53599 36.73
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AP.data.VC.Height = data.frame(site_unique=AP.data.VC.gt0$site_unique,
VCF.gt0=AP.data.VC.gt0$percentCover,
VCF.gt2=AP.data.VC.gt2$percentCover,
VCG.0to2=(AP.data.VC.gt0$percentCover-AP.data.VC.gt2$percentCover))
head(AP.data.VC.Height)
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AP.data.VC.trees = single_cover_value(AP.data$veg.PI, min.height=0)
head(AP.data.VC.trees)
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## site_unique percentCover
## 1 NSABBS0005-58582 49.50
## 2 NSABBS0006-58557 58.81
## 3 NSABHC0001-53596 0.00
## 4 NSABHC0002-53597 0.00
## 5 NSABHC0003-53598 0.00
## 6 NSABHC0004-53599 0.00
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AP.data.VC.grass = single_cover_value(AP.data$veg.PI, my.growth_forms=c("Hummock grass", "Tussock grass"), min.height=0)
head(AP.data.VC.grass)
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## site_unique percentCover
## 1 NSABBS0005-58582 0.10
## 2 NSABBS0006-58557 0.40
## 3 NSABHC0001-53596 3.36
## 4 NSABHC0002-53597 6.53
## 5 NSABHC0003-53598 0.69
## 6 NSABHC0004-53599 11.88
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AP.data.VC.TreesGrass = data.frame(site_unique=AP.data.VC.trees$site_unique,
VCF.trees=AP.data.VC.trees$percentCover,
VCF.grass=AP.data.VC.grass$percentCover)
head(AP.data.VC.TreesGrass)
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AP.data.VC.Trees.gt5 = single_cover_value(AP.data$veg.PI,
my.growth_forms=c("Tree/Palm", "Tree Mallee"), min.height=5)
head(AP.data.VC.Trees.gt5)
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