base_Fastcorrplot: help fast to draw a corrplot with multiple styles available...

In shijianasdf/BasicBioinformaticsAnalysisFromZhongShan: Launch Usual Clinical tool for Kind Yield

Description

help fast to draw a corrplot with multiple styles available to select

Usage

 Fastcorrplot(data,
             transposition = T,#是否转置矩阵
             order = T,
             select,
             lower.col = NULL,
             upper.col =NULL,
             upper = NULL,
             tl.pos = NULL,
             tl.col=NULL,
             tl.srt=NULL,
             diag = NULL,
             width=10,height=10,
             savefile=T,
             names="test1")

Arguments

data	gene expression matrix or data frame with patient cols and gene rows.
transposition	Whether use t(data) before corrplot making.If your matrix is one with gene rows,you should let transposition=T.
order	Whether use AOE order strategy.Default is T.
select	genes your want to explore the correlations.Note that the select genes must be part of rownames of expr.
...	parameters from corrplot.mixed.Default = NULL.Also you can defined it alternatively.
savefile	whether saving plot as PDF file.
names	part of PDF file names.

Details

Fastcorrplot() help fast to draw a corrplot with multiple styles available to select.Fastcorrplot() is based on corrplot::corrplot.mixed().

Value

a cor matrix and a corrplot

Author(s)

Weibin Huang

References

corrplot.mixed()

See Also

corrplot.mixed()

Examples

data(expr)
set.seed(2018);select=rownames(expr)[sample(1:nrow(expr),10)]
data <- expr[,1:(ncol(expr)-4)]
cor.matrix <- Fastcorrplot(data,
                           transposition = T,
                           select,
                           savefile=F,
                           names="test1")
# self-defined upper parameter
upper <- c("ellipse","circle","square","shade","pie")
cor.matrix <- Fastcorrplot(data,
                           transposition = T,
                           upper = upper[1],
                           select,
                           savefile=F,
                           names="test1")

# self-defined transposition parameter
upper <- c("ellipse","circle","square","shade","pie")
cor.matrix <- Fastcorrplot(data=state.x77,
                           transposition = F,
                           upper = upper[5],
                           select = colnames(state.x77),
                           savefile=F,
                           names="test1")

shijianasdf/BasicBioinformaticsAnalysisFromZhongShan documentation built on Jan. 3, 2020, 10:08 p.m.