To cite package 'IsoformSwitchAnalyzeR' in publications, use:

  Vitting-Seerup et al. The Landscape of Isoform Switches in Human
  Cancers. Mol. Cancer Res. (2017).

A BibTeX entry for LaTeX users is

  @Article{,
    title = {The Landscape of Isoform Switches in Human Cancers},
    author = {Kristoffer Vitting-Seerup and Albin Sandelin},
    journal = {Mol. Cancer Res},
    year = {2017},
    doi = {10.1158/1541-7786.MCR-16-0459},
    url = {http://mcr.aacrjournals.org/content/early/2017/06/02/1541-7786.MCR-16-0459},
  }

  Vitting-Seerup et al. IsoformSwitchAnalyzeR: Analysis of changes in
  genome-wide patterns of alternative splicing and its functional
  consequences. Bioinformatics. (2019).

A BibTeX entry for LaTeX users is

  @Article{,
    title = {IsoformSwitchAnalyzeR: Analysis of changes in genome-wide patterns of alternative splicing and its functional consequences},
    author = {Kristoffer Vitting-Seerup and Albin Sandelin},
    journal = {Bioinformatics},
    year = {2019},
    doi = {10.1093/bioinformatics/btz247},
    url = {http://dx.doi.org/10.1093/bioinformatics/btz247},
  }