chapterPreamble: Execute chapter preamble code

In MarioniLab/simpleSingleCell: A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor

Description

Execute code to set up the compilation environment at the start of every chapter.

Usage

chapterPreamble(cache = FALSE)

Arguments

cache

Logical indicating whether to cache code chunks.

Details

Compilation is performed with no tolerance for errors, no printing of package start-up messages, and no printing of warnings.

Numbers are printed to 4 digits of precision.

The BiocStyle package is automatically attached.

HTML elements are defined using setupHTML.

Value

See setupHTML.

Author(s)

Aaron Lun

Examples

tmp <- tempfile(fileext=".Rmd")
write(file=tmp, "```{r, echo=FALSE, results='asis'}
rebook::chapterPreamble()
```

```{r}
pi # four digits!
```

```{r}
warning('ASDASD') # warnings and messages are not saved in the HTML.
```

```{r, results='asis'}
prettySessionInfo()
```")

rmarkdown::render(tmp)

if (interactive()) browseURL(sub(".Rmd$", ".html", tmp))

MarioniLab/simpleSingleCell documentation built on Aug. 27, 2020, 5:04 a.m.