How to cite the Bioconductor package alpine

alpine is a popular Bioconductor package that is available at https://bioconductor.org/packages/alpine. 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 alpine package have suggested.

Example of an in-text citation

Analysis of the data was done using the alpine package (v1.16.0; Love et al., 2016).

Reference list entry

Love, M. I., Hogenesch, J. B., & Irizarry, R. A. (2016). Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation. Nature Biotechnology, 34(12), 1287–1291.

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 alpine package v1.16.0 (1).

Reference list entry

1.
Love MI, Hogenesch JB, Irizarry RA. Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation. Nat Biotechnol. 2016 Dec;34(12):1287–91.

BibTeX

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

BibTeX

@ARTICLE{Love2016-lp,
  title     = "Modeling of {RNA-seq} fragment sequence bias reduces systematic
               errors in transcript abundance estimation",
  author    = "Love, Michael I and Hogenesch, John B and Irizarry, Rafael A",
  journal   = "Nat. Biotechnol.",
  publisher = "Springer Science and Business Media LLC",
  volume    =  34,
  number    =  12,
  pages     = "1287--1291",
  month     =  dec,
  year      =  2016,
  url       = "http://dx.doi.org/10.1038/nbt.3682",
  language  = "en",
  issn      = "1087-0156, 1546-1696",
  doi       = "10.1038/nbt.3682"
}

RIS

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

RIS

TY  - JOUR
AU  - Love, Michael I
AU  - Hogenesch, John B
AU  - Irizarry, Rafael A
TI  - Modeling of RNA-seq fragment sequence bias reduces systematic errors in
      transcript abundance estimation
T2  - Nat. Biotechnol.
VL  - 34
IS  - 12
SP  - 1287-1291
PY  - 2016
DA  - 2016/12
PB  - Springer Science and Business Media LLC
SN  - 1087-0156
DO  - 10.1038/nbt.3682
UR  - http://dx.doi.org/10.1038/nbt.3682
ER  -

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