peaks.near.TSS: peaks.near.TSS
In anton-tsukanov/ClanChiPeaks: Cluster analisys of ChIP-seq peaks

Description Usage Arguments Details Value

View source: R/peaks.near.TSS.R

Plot the density profile of peaks in certain sites

peaks.near.TSS(peaks, sites, range = c(-2000, 2000), ignor.strand = F,
  vertical.facet = F, horizonatl.facet = F, wrap.facet = T,
  x.label = "Coordinates", y.label = "Density", legend.title = "TF",
  wide.of.line = 0.7, axis.text.size = 8, axis.title.size = 12,
  legend.title.size = 12, legend.text.size = 10, vertical.line = 0)

`peaks`	is a Granges object that contain TF (names of transcription factors) and Condition (colum with names of cell,tissue and so on) columns in metadata
`sites`	is a number of sites (GRanges object) with the equal width, eg. promoter regions
`range`	is a range with min and max values on x axis (abs sum is equale to width of sites)
`ignor.strand`	is a boolean and used when strand of sites is '*'
`vertical.facet`	TRUE for making vertical facet (useful when you have a lot of different TFs or Conditions)
`wrap.facet`	TRUE for making wrap facet (useful if there are a lot of TFs)
`x.label`	is a name of x axis
`y.label`	is a name of y axis
`legend.title`	is a title of legend
`wide.of.line`	is width of curve on plot
`axis.text.size`	is size of text on axis
`axis.title.size`	is size of title text
`legend.title.size`	is size of title text on legend
`legend.text.size`	is size of text on legend
`vertical.line`	is a coordinate of vertical line on plot
`horizontal.facet`	TRUE for making vertical facet (useful when you have TF and Condition colums)