ctPlotPoints: ctPlotPoints

In jrboyd/seqtsne: Application of t-sne to NGS Genomic Signal Profiles

ctPlotPoints

Description

ctPlotPoints

Usage

ctPlotPoints(
  sts,
  feature_name = NULL,
  signal_name = NULL,
  xmin = -Inf,
  xmax = Inf,
  profile_value = ssvQC:::val2var[sts$signal_config$plot_value],
  profile_value_label = ssvQC:::val2lab[sts$signal_config$plot_value],
  bg_color = "gray60",
  agg_FUN = max,
  point_size = 1
)

Arguments

sts	A ChIPtSNE object with ssvQC.prepSignal already called.
feature_name	Feature name present in sts. With default of NULL, first feature name will be used.
signal_name	Signal name present in sts. With default of NULL, first signal name will be used.
xmin	The min range of x-values to apply agg_FUN to.
xmax	The max range of x-values to apply agg_FUN to.
profile_value	Value to use for profiles. Default is the plot_value defined in the signal config of sts.
profile_value_label	Label to use for profile scale. Default is the plot_value label defined in the signal config of sts.
bg_color	Color to use for plot background. Default is "gray60".
agg_FUN	A function appled to all y_ values in xmin to xmax range. Must accept single numeric vector and return 1 value.
point_size	Size to plot points at. Default is 1.

Value

ggplot where each profile is summarized by a single point in t-SNE space.

Examples

data(ex_sts)
ctPlotPoints(sts)

jrboyd/seqtsne documentation built on Nov. 5, 2022, 6:37 a.m.