positional_bias: Analyse positional bias of motifs in a set of DNA sequences

In TedCCLeung/PhotoperiodMotif: What the Package Does (One Line, Title Case)

Analyse positional bias of motifs in a set of DNA sequences

Description

Analyse positional bias of motifs in a set of DNA sequences

Usage

positional_bias(
  motifs,
  seqs,
  separate_motifs = TRUE,
  seq_names = NULL,
  pvalue = 1e-06,
  reverse_complement = TRUE,
  bandwidth = NULL
)

Arguments

motifs	Universalmotif object or name of a .meme file with motifs
seqs	List of Biostrings objects or list of file names of .fa file for DNA sequences
separate_motifs	Logical. Whether individual motif should be analyzed separately
seq_names	Names of the individual items in the list_of_seqs
pvalue	Numerical. p-value for calling a motif peak
reverse_complement	Logical. Whether the reverse complement is used to look for motifs
bandwidth	Bandwidth of the universalmotif package

Value

Data frame

TedCCLeung/PhotoperiodMotif documentation built on April 27, 2022, 9:01 p.m.