plot4rowanovaMatVec: ordered horizontal bar plot for rowanovaMatVec

Description Usage Arguments Value

Description

ordered horizontal bar plot for rowanovaMatVec

Usage

1
2
3
4
5
6
plot4rowanovaMatVec(x, rowInfo = NULL, decreasing = FALSE,
  dataMode = "IC50", groupShown = NULL, ylab = NULL, xlab = NULL,
  sizex = 12, sizey, size_group = 10, main = NULL, showP = "None",
  pthr = 1, colorSignif = TRUE, legend.position = c(0.85, 0.2),
  legend.title = "Significance", truncFClow = -Inf, truncFChigh = Inf,
  barWidth = 0.8, verbose = FALSE)

Arguments

rowInfo

alternative rownames to show on the figure

decreasing

logic, decreasing order of p value used to sort the rows (genes) based on anovaP.

dataMode

a string used to label the x-axis. Default is 'IC50' for IC50 t-test; Please use meaning string relevant to the data.

groupShown

string for group to shown, leading a t test type (FC vs adj p value). e.g. 'HCC4006_ER1-HCC4006'

sizex

x axis label size

sizey

y axis label size

size_group

label size for facets

showP

do not show P value on graph ('None'); show actual P ('Value'); show P category ('Category')

pthr

filtering by p value. Rows with larger P value will be deleted. Default is to use all rows (pthr=1)

legend.position

position for the legend if P value is show as category

legend.title

title of the legend

truncFClow

cutoff to truncate FC lower than this value. Defalt is -Inf, which means no truncation on small FC (negative) value

truncFChigh

cutoff to truncate FC higher than this value. Defalt is Inf, which means no truncation on large FC (usually positive) value

barWidth

relative barwidth (0~1)

Value

a ggplot2 object


nickytong/GenAnalysis documentation built on July 20, 2019, 8:57 a.m.