MotifSearchResult-class: MotifSearchResult-class

In ddiez/motiftools: Tools to analyze sequence motifs

Description

This document described the MotifSearchResult class and methods for storing results from motif finding methods (e.g. MEME, FIMO and MAST).

Usage

## S4 method for signature 'MotifSearchResult'
show(object)

## S4 method for signature 'MotifSearchResult,ANY'
x[i, j, ..., drop = FALSE]

nmotif(object)

nseq(object)

motifNames(object)

sequenceNames(object)

scores(object)

pwm(object)

Arguments

object	MotifSearchResult object.
x	MotifSearchResult object.
i	row number (motif).
j	column number (sequence).
...	further arguments passed down to method.
drop	logical; whether to coerce to vector when number of columns equal one.

Slots

info

list with result information.

sequences

AnnotatedDataFrame with sequence information.

motifs

AnnotatedDataFrame with motif information.

probabilities

list of motif probabilities.

scores

list of motif scores.

ranges

GRanges with motif hits.

ddiez/motiftools documentation built on May 8, 2020, 11:38 a.m.