In bmcnellis/SDEF.analysis: Data Analysis for 2016 San Dimas Experimental Forest Project

This vignette documents the SDEF root carbon and biomass analysis, including scaling and figure creation.

Data Description

Full descriptions are in the *.R files in the "../R" directory.

'SDEF_2016_RootAshWeights.txt' - raw ash weight data for carbon content calculation.

'SDEF_2016_RootLengths.txt' - processed root length/diameter data for biovolume calculation.

Terminology

'biomass' - oven-dried (72h @ 60C) plant roots, >2mm

'biovolume' - volume occupied by biomass, calculated from root geometry

Data Processing

The figure sizes have been customised so that you can easily put two images side-by-side.

data <- read.table("SDEF_2016_RootLengths.txt", sep="\t", header=TRUE)
data <- data
data$date <- as.character(data$date)
data$date <- as.Date(data$date, format="%m/%d/%Y")
data <- ConvertFrameDepth(data)

You can enable figure captions by fig_caption: yes in YAML:

output:
  rmarkdown::html_vignette:
    fig_caption: yes

Then you can use the chunk option fig.cap = "Your figure caption." in knitr.

More Examples

You can write math expressions, e.g. $Y = X\beta + \epsilon$, footnotes^[A footnote here.], and tables, e.g. using knitr::kable().

knitr::kable(head(mtcars, 10))

Also a quote using >:

"He who gives up [code] safety for [code] speed deserves neither." (via)

bmcnellis/SDEF.analysis documentation built on June 4, 2019, 10 a.m.