knitr::opts_chunk$set(collapse = TRUE, comment = "#>")
Medicine researchers are always disturbed by how to draw a publish-level plot for their medical project.Package lucky is a assembly functions of my own in daily use.It contains several critical modules as following.
Lower Camel Case is the most usual name rule in R programing.However,I plan to use Upper Camel Case,which is also another good choice but make lucky functions easier to be searched.It looks like FastBar
,FastExtra
and so on.
A good output of a standard publish-level object(including plot) should have these features:
save.file
whether to save file in present work space.names
part of the names of saved filed.If you set names
like lucky
,the name of output file would looks like lucky_barplot.pdf
This is defined by parameter repeat
and output as an element of list
It is supported by LuckyDebug
function as a S4 method
repeat
the present parameters
data
the important data of this function
plot
the plot of the
library(lucky) library(ggpubr) # Data df <- data.frame(dose=c("D0.5", "D1", "D2"), len=c(4.2, 10, 29.5)) print(df)
FastBar
is based on ggpubr::ggboxplot
.
# draw a barplot FastBar(data = df, x = "dose",y = "len", fill = "dose", title = "Test_lucky::FastBar", legend.position = "right", size = 10) # white fill FastBar(data = df, x = "dose",y = "len", fill = "white", title = "Test_lucky::FastBar", legend.position = "right", size = 10) # no legend FastBar(data = df, x = "dose",y = "len", fill = "white", title = "Test_lucky::FastBar", legend.position = "none",#with no legend size = 10) ## larger size FastBar(data = df, x = "dose",y = "len", fill = "white", title = "Test_lucky::FastBar", legend.position = "none",#with no legend size = 15)
Vignettes are long form documentation commonly included in packages. Because they are part of the distribution of the package, they need to be as compact as possible. The html_vignette
output type provides a custom style sheet (and tweaks some options) to ensure that the resulting html is as small as possible. The html_vignette
format:
Note the various macros within the vignette
section of the metadata block above. These are required in order to instruct R how to build the vignette. Note that you should change the title
field and the \VignetteIndexEntry
to match the title of your vignette.
The html_vignette
template includes a basic CSS theme. To override this theme you can specify your own CSS in the document metadata as follows:
output: rmarkdown::html_vignette: css: mystyles.css
The figure sizes have been customised so that you can easily put two images side-by-side.
plot(1:10) plot(10:1)
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.
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)
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