ks.heatmap: ks.heatmap

In kstawiski/miRNAselector: miRNAselector - a package for biomarker selection based on high-throughput experiments.

Description

Draw a heatmap of selected miRNAs.

Usage

ks.heatmap(
  x = trainx[, 1:10],
  rlab = data.frame(Batch = dane$Batch, Class = dane$Class),
  zscore = F,
  margins = c(10, 10),
  expression_name = "log10(TPM)",
  trim_min = NULL,
  trim_max = NULL,
  centered_on = NULL,
  legend_pos = "topright",
  legend_cex = 0.8,
  ...
)

Arguments

x	Matrix of log-transformed TPM-normalized counts with miRNAs in columns and cases in rows.
rlab	Data frame of factors to be marked on heatmap (like batch or class). Maximum of 2 levels for every variable is supported.
zscore	Whether to z-score values before clustering and plotting.
expression_name	What should be written on the plot?
trim_min	Trim lower than.. Useful for setting appropriate scale
trim_max	Trim greater than.. Useful for setting appropriate scale
centered_on	On which value should the scale be centered? If null - median will be used.
legend_pos	Where should the legend should be? Default: topright
legend_cex	How large should the legend should be? Default: 0.8

Value

Heatmap.

kstawiski/miRNAselector documentation built on Oct. 10, 2020, 9:03 a.m.