cit.pangenomCoord: cit.pangenomCoord

In FunGeST/Palimpsest: Package

cit.pangenomCoord

Description

cit.pangenomCoord

Usage

cit.pangenomCoord(
  x,
  chrom = "chrom",
  pos = "meanPos",
  startPos = "start",
  endPos = "end",
  cyto = NULL,
  absPos = "absPos",
  chromNum = "chrNum"
)

Arguments

x	data.frame which columns include genomic position information
chrom	the column in x giving the chromosome position (in 1:22,X,Y)
pos	the column in x giving the base pair position (optional)
startPos	the column in x giving the start base pair position
endPos	the column in x giving the end base pair position
cyto	cytoband object (optional)
absPos	name of added column giving absolute pangenomic order
chromNum	the column in x giving the chromosome position with X = 23 & Y =24

FunGeST/Palimpsest documentation built on June 2, 2024, 4:21 a.m.