In abliu/tb: Analyzes TB Transcriptomic Data for Diagnostics and Mechanism

load_pkgs = c('cowplot', 'ggplot2', 'magrittr', 'tufte')
purrr::walk(load_pkgs, ~ library(., character.only = TRUE))
devtools::load_all()
knitr::opts_chunk$set(
  tidy = FALSE,
  warning = FALSE,
  message = FALSE,
  echo = FALSE,
  fig.fullwidth = TRUE,
  fig.width = 4,
  fig.height = 3)
options(htmltools.dir.version = FALSE)

# Wrap in .cache_ from utils! E.g. gd = .cache_('gen_data', here::here('vignettes', <Rmd_filename>), function() {<evaluate code here and return important variables in list>})
gd = .cache_('gen_data', here::here('vignettes', 'skeleton'), function() {
  Sys.sleep(10)
  return(list(stats=1:10))
})

# Use the dependson chunk options.
theme_set(theme_gray(base_size = 10))
ggplot(mtcars, aes(x=wt, y=mpg)) + geom_point()

First check whether you can fit your section (all GITS) on a Beamer slide (5.04 x 3.78 in). This is why I default set fig.width=4 and fig.height=3^[This includes margin text.].

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p <- ggplot(mpg, aes(displ, cty)) + geom_point()
p + facet_grid(drv ~ .)

It also includes tables. Use knitr::kable for tables.

knitr::kable(mtcars[1:6, 1:6])

abliu/tb documentation built on May 8, 2019, 5:40 p.m.