motifLatexTable: create of table of motifs

In motifRG: A package for discriminative motif discovery, designed for high throughput sequencing dataset

Description

create a latex table to be embedded in a latex document

Usage

 motifLatexTable(motifs,  main="", prefix="motif", dir=".", height=1,
 width=3,enriched.only=F, plot.pwm= TRUE,
summary.cols=c(1,7,8,9),use.mask=TRUE)
 motifHtmlTable(motifs, dir="html", prefix="motif", enriched.only=F,
plot.pwm= TRUE, summary.cols=c(1,7,8,9),use.mask=TRUE)

Arguments

motifs	result of findMotif
main	The title of table
prefix	The prefix for the filenames of motif logos
dir	The directory for storing motif logo files
height, width	size of the sequence logo
enriched.only	If true, list only enriched motifs
plot.pwm	If true, plot PWM logo instead of di-nucleotide logo
summary.cols	The selected columns of summary table created by summaryMotif included in the table
use.mask	If true, use masked motif match summary statistics

Value

motifLatexTable outputs a latex table to the stdout console. motifHtmlTable outputs a html file named as <preix>.html in "dir" directory.

See Also

findMotif

Examples

  data(ctcf.motifs)
  ### Create table of motifs in Latex 
  motifLatexTable(ctcf.motifs, main="CTCF motifs", dir="motif")

  ### Create table of motifs in Html
  motifHtmlTable(ctcf.motifs, dir="Html")

motifRG documentation built on April 28, 2020, 8:46 p.m.