How to cite the Bioconductor package viper

viper is a popular Bioconductor package that is available at https://bioconductor.org/packages/viper. By citing R packages in your paper you lay the grounds for others to be able to reproduce your analysis and secondly you are acknowledging the time and work people have spent creating the package.

APA citation

Formatted according to the APA Publication Manual 7^th edition. Simply copy it to the References page as is.

APA

The minimal requirement is to cite the R package in text along with the version number. Additionally, you can include the reference list entry the authors of the viper package have suggested.

Example of an in-text citation

Analysis of the data was done using the viper package (v1.24.0; Alvarez et al., 2016).

Reference list entry

Alvarez, M. J., Shen, Y., Giorgi, F. M., Lachmann, A., Ding, B. B., Ye, B. H., & Califano, A. (2016). Functional characterization of somatic mutations in cancer using network-based inference of protein activity. In Nature genetics (Vol. 48, Issue 8, pp. 838–847).

Vancouver citation

Formatted according to Vancouver style. Simply copy it to the references section as is.

Vancouver

Example of an in-text citation

Analysis of the data was done using the viper package v1.24.0 (1).

Reference list entry

1.
Alvarez MJ, Shen Y, Giorgi FM, Lachmann A, Ding BB, Ye BH, et al. Functional characterization of somatic mutations in cancer using network-based inference of protein activity. Vol. 48, Nature genetics. 2016. p. 838–47.

BibTeX

Reference entry in BibTeX format. Simply copy it to your favorite citation manager.

BibTeX

@MISC{Alvarez2016-hk,
  title   = "Functional characterization of somatic mutations in cancer using
             network-based inference of protein activity",
  author  = "Alvarez, Mariano J and Shen, Yao and Giorgi, Federico M and
             Lachmann, Alexander and Ding, B Belinda and Ye, B Hilda and
             Califano, Andrea",
  journal = "Nature genetics",
  volume  =  48,
  number  =  8,
  pages   = "838--847",
  year    =  2016
}

RIS

Reference entry in RIS format. Simply copy it to your favorite citation manager.

RIS

TY  - MISC
AU  - Alvarez, Mariano J
AU  - Shen, Yao
AU  - Giorgi, Federico M
AU  - Lachmann, Alexander
AU  - Ding, B Belinda
AU  - Ye, B Hilda
AU  - Califano, Andrea
TI  - Functional characterization of somatic mutations in cancer using
      network-based inference of protein activity
T2  - Nature genetics
VL  - 48
IS  - 8
SP  - 838-847
PY  - 2016
DA  - 2016
ER  -

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