fitAndPlot: Fit a motif with CENTIPEDE and plot the profile and posterior...
In slowkow/CENTIPEDE.tutorial: A tutorial for running CENTIPEDE.

Description Usage Arguments Details Value

Fit a motif with CENTIPEDE and plot the profile and posterior distribution.

1	fitAndPlot(motif, cen, score = NA, pvalue = NA)

`motif`	A string of a specific motif
`cen`	an object
`score`	fimo score cutoff
`p.value`	p.value cutoff

cen is a list returned by centipede_data. It has a dataframe called regions with one row for each putative motif match. It also has a matrix called mat with one row for each match, and each column is a nucleotide position relative to the center of the motif match. The values in this matrix are the count of read start sites at that position.

plot of profile and posterior distribution of a specific motif

slowkow/CENTIPEDE.tutorial documentation built on May 30, 2019, 3:06 a.m.