pick_points: Interactively Pick Points and Group Data

In ZachHunter/bvt: Visualization Tools for Bioconductor

Interactively Pick Points and Group Data

Description

A Shiny Widget to Inspect Points and Define Groups in Existing bvt and NicePlots Graphs

Usage

pick_points(
  data,
  dataTable = NULL,
  selectFillCol = setAlpha("gold", 0.6),
  selectLineCol = setAlpha("darkgoldenrod1", 0.9),
  selectSize = 1.5
)

Arguments

data	A saved plot of class npData (plots generated by bvt and NicePlots)
dataTable	An optional table of phenotype data used to explore point and group characteristics
selectFillCol	A valid R color used as the fill color for selected points
selectLineCol	A valid R color used for the outline of selected points
selectSize	A cex size of selected points

Details

The pick_points function provides a shiny based interactive environment to inspect data points on a graph and create new factors based on selected data. A basic data summary table is provided that updates as data points are assigned to different factor levels. Useful for exploratory data analysis and quality assurance checks. Any saved plot with drawn point generated with bvt or NicePlots can be used with this interface.

See Also

genePlot

Examples

data(iris)
a<-genePlot(t(iris[,1:4]), group=iris$Species)
#Note that devtools::check()  has issues shiny gadget returns
#newFactor is being assigned to Species just to let it compile
newFactor<-iris$Species
#newFactor<-pick_points(a)
summary(newFactor)
pairwise.wilcox.test(iris[,2],newFactor)

ZachHunter/bvt documentation built on Sept. 18, 2024, 3:12 p.m.