R语言——heatmap（一）

heatmap各个参数含义

# data scaling处理数据

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scale = c("none","row", "column"), #标准化行或者列

default="none"

---

# color key + density info

key = TRUE,

keysize = 1.5,

density.info=c("histogram","density","none"),

denscol=tracecol,

symkey = any(x < 0, na.rm=TRUE) || symbreaks,

densadj = 0.25,

key.title = NULL,

key.xlab = NULL,

key.ylab = NULL,

key.xtickfun = NULL,

key.ytickfun = NULL,

key.par=list(),

---

# Row/Column Labeling

margins = c(5, 5),

ColSideColors,

RowSideColors,

cexRow = 0.2 + 1/log10(nr),  #调整行标字体大小

cexCol = 0.2 + 1/log10(nc),

labRow = NULL,

labCol = NULL,

srtRow = NULL,

srtCol = NULL,

adjRow = c(0,NA),

adjCol = c(NA,0),

offsetRow = 0.5,

offsetCol = 0.5,

colRow = NULL,

colCol = NULL,

---

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参数：Rowv

determines if and how the row dendrogram should be reordered.By default, it is TRUE, which implies dendrogram is computed andreordered based on row means. If NULL or FALSE, then nodendrogram is computed and no reordering is done. If a dendrogram,then it is used "as-is", ie without any reordering. If a vector ofintegers, then dendrogram is computed and reordered based on theorder of the vector.

决定是否和如何应重新排序的行聚类分析。默认情况下，是TRUE,也就说基于行的平均值聚类。如果为NULL或FALSE，则没有聚类分析计算，并没有进行重新排序。

参数：Colv

determines if and how the column dendrogram should be reordered. Has the options as the Rowv argument above and additionally when x is a square matrix, Colv = "Rowv" means that columns should be treated identically to the rows.

决定是否以及如何应重新排序列的聚类分析。同上

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pheatmap

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