base_MINEplot: a corrplot based on MINE cor matrix

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

Description

a corrplot based on MINE cor matrix

Usage

  MINE.corrplot(data,
              transposition = F,
              select,
              order = T,
              lower.col = NULL,
              upper.col =NULL,
              upper = NULL,
              tl.pos = NULL,
              tl.col=NULL,
              tl.srt=NULL,
              diag = NULL,
              savefile=T,
              names="love")

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.

Value

corrplot a list containing cor matrix of MIC values.

Author(s)

Weibin Huang<[e-mail]>

Examples

## example
data = state.x77
result <- MINEplot(data,
                   transposition = F,
                   select=colnames(data),
                   QC=T,order = T,outer.ratio = 0.5,
                   savefile=F,
                   names="love")
View(result[["MINE.result"]])
View(result[["MIC.matirx"]])

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