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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "motifcounter" in publications use:'
type: software
license: GPL-2.0-only
title: 'motifcounter: R package for analysing TFBSs in DNA sequences'
version: 1.29.0
doi: 10.18129/B9.bioc.motifcounter
identifiers:
- type: doi
  value: 10.32614/CRAN.package.motifcounter
abstract: '''motifcounter'' provides motif matching, motif counting and motif enrichment
  functionality based on position frequency matrices. The main features of the packages
  include the utilization of higher-order background models and accounting for self-overlapping
  motif matches when determining motif enrichment. The background model allows to
  capture dinucleotide (or higher-order nucleotide) composition adequately which may
  reduced model biases and misleading results compared to using simple GC background
  models. When conducting a motif enrichment analysis based on the motif match count,
  the package relies on a compound Poisson distribution or alternatively a combinatorial
  model. These distribution account for self-overlapping motif structures as exemplified
  by repeat-like or palindromic motifs, and allow to determine the p-value and fold-enrichment
  for a set of observed motif matches.'
authors:
- family-names: Kopp
  given-names: Wolfgang
  email: wolfgang.kopp@mdc-berlin.de
preferred-citation:
  type: manual
  title: 'motifcounter: R package for analysing TFBSs in DNA sequences'
  authors:
  - family-names: Kopp
    given-names: Wolfgang
    email: wolfgang.kopp@mdc-berlin.de
  year: '2017'
  doi: 10.18129/B9.bioc.motifcounter
repository: https://bioc.r-universe.dev
commit: a85abf54ca50d4e22a0a138aa0c9600d47e1d9cf
contact:
- family-names: Kopp
  given-names: Wolfgang
  email: wolfgang.kopp@mdc-berlin.de