BayesPeak--an R package for analysing ChIP-seq data.
Bioinformatics
; 27(5): 713-4, 2011 Mar 01.
Article
em En
| MEDLINE
| ID: mdl-21245054
ABSTRACT
MOTIVATION Identification of genomic regions of interest in ChIP-seq data, commonly referred to as peak-calling, aims to find the locations of transcription factor binding sites, modified histones or nucleosomes. The BayesPeak algorithm was developed to model the data structure using Bayesian statistical techniques and was shown to be a reliable method, but did not have a full-genome implementation. RESULTS:
In this note we present BayesPeak, an R package for genome-wide peak-calling that provides a flexible implementation of the BayesPeak algorithm and is compatible with downstream BioConductor packages. The BayesPeak package introduces a new method for summarizing posterior probability output, along with methods for handling overfitting and support for parallel processing. We briefly compare the package with other common peak-callers.AVAILABILITY:
Available as part of BioConductor version 2.6. URL http//bioconductor.org/packages/release/bioc/html/BayesPeak.html.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Algoritmos
/
Software
/
Teorema de Bayes
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Imunoprecipitação da Cromatina
Tipo de estudo:
Health_economic_evaluation
/
Prognostic_studies
Idioma:
En
Ano de publicação:
2011
Tipo de documento:
Article