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beadarrayFilter: an R package to filter beads

(2013) R JOURNAL. 5(1). p.171-180
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Bioinformatics: from nucleotids to networks (N2N)
Abstract
Microarrays enable the expression levels of thousands of genes to be measured simultaneously. However, only a small fraction of these genes are expected to be expressed under different experimental conditions. Nowadays, filtering has been introduced as a step in the microarray preprocessing pipeline. Gene filtering aims at reducing the dimensionality of data by filtering redundant features prior to the actual statistical analysis. Previous filtering methods focus on the Affymetrix platform and can not be easily ported to the Illumina platform. As such, we developed a filtering method for Illumina bead arrays. We developed an R package, beadarrayFilter, to implement the latter method. In this paper, the main functions in the package are highlighted and using many examples, we illustrate how beadarrayFilter can be used to filter bead arrays.

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Citation

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Chicago
Forcheh, Anyiawung Chiara, Geert Verbeke, Adetayo Kasim, Dan Lin, Ziv Shkedy, Willem Talloen, Hinrich WH Göhlmann, and Lieven Clement. 2013. “beadarrayFilter: An R Package to Filter Beads.” R Journal 5 (1): 171–180.
APA
Forcheh, A. C., Verbeke, G., Kasim, A., Lin, D., Shkedy, Z., Talloen, W., Göhlmann, H. W., et al. (2013). beadarrayFilter: an R package to filter beads. R JOURNAL, 5(1), 171–180.
Vancouver
1.
Forcheh AC, Verbeke G, Kasim A, Lin D, Shkedy Z, Talloen W, et al. beadarrayFilter: an R package to filter beads. R JOURNAL. 2013;5(1):171–80.
MLA
Forcheh, Anyiawung Chiara, Geert Verbeke, Adetayo Kasim, et al. “beadarrayFilter: An R Package to Filter Beads.” R JOURNAL 5.1 (2013): 171–180. Print.
@article{4236503,
  abstract     = {Microarrays enable the expression levels of thousands of genes to be measured simultaneously. However, only a small fraction of these genes are expected to be expressed under different experimental conditions. Nowadays, filtering has been introduced as a step in the microarray preprocessing pipeline. Gene filtering aims at reducing the dimensionality of data by filtering redundant features prior to the actual statistical analysis. Previous filtering methods focus on the Affymetrix platform and can not be easily ported to the Illumina platform. As such, we developed a filtering method for Illumina bead arrays. We developed an R package, beadarrayFilter, to implement the latter method. In this paper, the main functions in the package are highlighted and using many examples, we illustrate how beadarrayFilter can be used to filter bead arrays.},
  author       = {Forcheh, Anyiawung Chiara and Verbeke, Geert and Kasim, Adetayo and Lin, Dan and Shkedy, Ziv and Talloen, Willem and G{\"o}hlmann, Hinrich WH and Clement, Lieven},
  issn         = {2073-4859},
  journal      = {R JOURNAL},
  language     = {eng},
  number       = {1},
  pages        = {171--180},
  title        = {beadarrayFilter: an R package to filter beads},
  url          = {http://journal.r-project.org/archive/2013-1/forcheh-verbeke-kasim-etal.pdf},
  volume       = {5},
  year         = {2013},
}

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