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JBrowseR: an R interface to the JBrowse 2 genome browser.
Hershberg, Elliot A; Stevens, Garrett; Diesh, Colin; Xie, Peter; De Jesus Martinez, Teresa; Buels, Robert; Stein, Lincoln; Holmes, Ian.
Afiliação
  • Hershberg EA; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • Stevens G; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • Diesh C; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • Xie P; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • De Jesus Martinez T; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • Buels R; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
  • Stein L; Adaptive Oncology, Ontario Institute for Cancer Research, Toronto, ON M5G 0A3, Canada.
  • Holmes I; Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA.
Bioinformatics ; 37(21): 3914-3915, 2021 11 05.
Article em En | MEDLINE | ID: mdl-34196689
ABSTRACT
MOTIVATION Genome browsers are an essential tool in genome analysis. Modern genome browsers enable complex and interactive visualization of a wide variety of genomic data modalities. While such browsers are very powerful, they can be challenging to configure and program for bioinformaticians lacking expertise in web development.

RESULTS:

We have developed an R package that provides an interface to the JBrowse 2 genome browser. The package can be used to configure and customize the browser entirely with R code. The browser can be deployed from the R console, or embedded in Shiny applications or R Markdown documents. AVAILABILITY AND IMPLEMENTATION JBrowseR is available for download from CRAN, and the source code is openly available from the Github repository at https//github.com/GMOD/JBrowseR/.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Genoma / Genômica Idioma: En Ano de publicação: 2021 Tipo de documento: Article
Texto completo
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Genoma / Genômica Idioma: En Ano de publicação: 2021 Tipo de documento: Article