1.热图 

r package ComplexHeatmap 

https://github.com/jokergoo/ComplexHeatmap

install

if(!requireNamespace("BiocManager",quietly=TRUE)) 

install.packages("BiocManager")BiocManager::install("ComplexHeatmap")

library(devtools)996

install_github("jokergoo/ComplexHeatmap")

usage

Make a single heatmap:

Heatmap(mat,...)

A single Heatmap with column annotations:

ha=HeatmapAnnotation(df=anno1,anno_fun=anno2,...)Heatmap(mat,...,top_annotation=ha)

Make a list of heatmaps:

Heatmap(mat1,...)+Heatmap(mat2,...)

Make a list of heatmaps and row annotations:

ha=HeatmapAnnotation(df=anno1,anno_fun=anno2,...,which="row")Heatmap(mat1,...)+Heatmap(mat2,...)+ha

R package superheat

install

install.packages("devtools")

devtools::install_github("rlbarter/superheat")

usage

superheat(mtcars,

          # normalize variables

          scale = T,

          # order rows/cols based on heirarchical clustering

          pretty.order.rows = TRUE,

          pretty.order.cols = TRUE,

          # plot miles per gallon next to the rows

          yr = mtcars$mpg,

          yr.axis.name = "miles per gallon",

          # plot correlation with mpg above columns

          yt = cor(mtcars)[, "mpg"],

          yt.plot.type = "bar",

          yt.axis.name = "correlation with mpg",

          # increase size of left labels

          left.label.size = 0.45)