abdPlot: Abundances barplot

Description Usage Arguments Details Value Examples

View source: R/sampleView.R

Description

Display the abundances barplot of a clustering.

Usage

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abdPlot(
  label,
  title,
  charsize = 11,
  point.param = c("grey", "black", "red", "blue", "green", "cyan", "yellow", "orange",
    "rosybrown", "palevioletred", "darkblue", "deeppink", "blueviolet", "darkgoldenrod1",
    "chartreuse", "darkorchid1", "deeppink", "coral", "darkolivegreen1", "#66C2A5",
    "#9DAE8C", "#D49A73", "#F08F6D", "#C79693", "#9E9DBA", "#9F9BC9", "#C193C6",
    "#E28BC3", "#D2A29F", "#BABF77", "#AAD852", "#CBD844", "#ECD836", "#FAD53E",
    "#F1CD64", "#E7C689", "#D7BF9C", "#C5B9A7", "#B3B3B3", "#D53E4F", "#E04F4A",
    "#EB6046", "#F47346", "#F88B51",      "#FBA35C", "#FDB869", "#FDCA79", "#FDDD88",
    "#F6E68F", "#EDEE93", "#E2F398", "#CDEA9D", "#B7E2A1", "#A0D8A4", "#86CEA4",
    "#6DC4A4", "#58B2AB", "#459DB4", "#3288BD")
)

Arguments

label

factor describing the clustering.

title

naming the graph.

charsize

character size

point.param

specifying the colors and the symbols to use for clusters display.

Details

abdPlot displays the abundances barplot of a clustering.

Value

None

Examples

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dat <- rbind(matrix(rnorm(100, mean = 2, sd = 0.3), ncol = 2), 
             matrix(rnorm(100, mean = 4, sd = 0.3), ncol = 2), 
             matrix(rnorm(100, mean = 6, sd = 0.3), ncol = 2))
colnames(dat) <- c("x","y")
tf <- tempfile()
write.table(dat, tf, sep=",", dec=".")

x <- importSample(file.features=tf, dir.save=tempdir())

x <- computeUnSupervised(x, K=3, method.name='K-means')

abdPlot(x[["clustering"]][["K-means_preprocessed"]][["label"]], 'K-means_preprocessed')
 

RclusTool documentation built on Feb. 4, 2020, 5:08 p.m.