inst/doc/plots_heatmap.R

In ELMER: Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

## ---- echo = FALSE,hide=TRUE, message=FALSE, warning=FALSE--------------------
library(ELMER.data)
library(ELMER)
library(DT)
library(dplyr)
library(BiocStyle)

## ----eval=TRUE, message=FALSE, warning = FALSE, results = "hide"--------------
# Load results from previous sections
mae <- get(load("mae.rda"))

## ----results='hide', echo=TRUE,eval=F, message=FALSE, warning=FALSE, fig.width=10, fig.height=5, fig.cap="Heatmap of paired pairs."----
#  
#  pair <- read.csv("result/getPair.hypo.pairs.significant.csv")
#  
#  heatmapPairs(data = mae,
#               group.col = "definition",
#               group1 = "Primary solid Tumor",
#               annotation.col = c("years_smoked","gender"),
#               group2 = "Solid Tissue Normal",
#               pairs = pair,
#               filename =  NULL)
#