How to cite the Bioconductor package ideal
ideal is a popular Bioconductor package that is available at https://bioconductor.org/packages/ideal. 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 7th edition. Simply copy it to the References page as is.
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 ideal package have suggested.
Example of an in-text citation
Analysis of the data was done using the ideal package (v1.14.0; Marini et al., 2020).
Reference list entry
Marini, F., Linke, J., & Binder, H. (2020). ideal: an R/Bioconductor package for Interactive Differential Expression Analysis. bioRxiv. https://doi.org/10.1101/2020.01.10.901652
Vancouver citation
Formatted according to Vancouver style. Simply copy it to the references section as is.
Example of an in-text citation
Analysis of the data was done using the ideal package v1.14.0 (1).
Reference list entry
1.Marini F, Linke J, Binder H. ideal: an R/Bioconductor package for Interactive Differential Expression Analysis [Internet]. bioRxiv; 2020. Available from: http://dx.doi.org/10.1101/2020.01.10.901652
BibTeX
Reference entry in BibTeX format. Simply copy it to your favorite citation manager.
@UNPUBLISHED{Marini2020-hb, title = "ideal: an {R/Bioconductor} package for Interactive Differential Expression Analysis", author = "Marini, Federico and Linke, Jan and Binder, Harald", abstract = "AbstractBackgroundRNA sequencing (RNA-seq) is an ever increasingly popular tool for transcriptome profiling. A key point to make the best use of the available data is to provide software tools that are easy to use but still provide flexibility and transparency in the adopted methods. Despite the availability of many packages focused on detecting differential expression, a method to streamline this type of bioinformatics analysis in a comprehensive, accessible, and reproducible way is lacking.ResultsWe developed the ideal software package, which serves as a web application for interactive and reproducible RNA-seq analysis, while producing a wealth of visualizations to facilitate data interpretation. ideal is implemented in R using the Shiny framework, and is fully integrated with the existing core structures of the Bioconductor project. Users can perform the essential steps of the differential expression analysis work-flow in an assisted way, and generate a broad spectrum of publication-ready outputs, including diagnostic and summary visualizations in each module, all the way down to functional analysis. ideal also offers the possibility to seamlessly generate a full HTML report for storing and sharing results together with code for reproducibility.Conclusionideal is distributed as an R package in the Bioconductor project (http://bioconductor.org/packages/ideal/), and provides a solution for performing interactive and reproducible analyses of summarized RNA-seq expression data, empowering researchers with many different profiles (life scientists, clinicians, but also experienced bioinformaticians) to make the ideal use of the data at hand.", institution = "bioRxiv", month = jan, year = 2020, url = "http://dx.doi.org/10.1101/2020.01.10.901652", doi = "10.1101/2020.01.10.901652" }
RIS
Reference entry in RIS format. Simply copy it to your favorite citation manager.
TY - INPR AU - Marini, Federico AU - Linke, Jan AU - Binder, Harald TI - ideal: an R/Bioconductor package for Interactive Differential Expression Analysis PY - 2020 DA - 2020/1/11 AB - AbstractBackgroundRNA sequencing (RNA-seq) is an ever increasingly popular tool for transcriptome profiling. A key point to make the best use of the available data is to provide software tools that are easy to use but still provide flexibility and transparency in the adopted methods. Despite the availability of many packages focused on detecting differential expression, a method to streamline this type of bioinformatics analysis in a comprehensive, accessible, and reproducible way is lacking.ResultsWe developed the ideal software package, which serves as a web application for interactive and reproducible RNA-seq analysis, while producing a wealth of visualizations to facilitate data interpretation. ideal is implemented in R using the Shiny framework, and is fully integrated with the existing core structures of the Bioconductor project. Users can perform the essential steps of the differential expression analysis work-flow in an assisted way, and generate a broad spectrum of publication-ready outputs, including diagnostic and summary visualizations in each module, all the way down to functional analysis. ideal also offers the possibility to seamlessly generate a full HTML report for storing and sharing results together with code for reproducibility.Conclusionideal is distributed as an R package in the Bioconductor project (http://bioconductor.org/packages/ideal/), and provides a solution for performing interactive and reproducible analyses of summarized RNA-seq expression data, empowering researchers with many different profiles (life scientists, clinicians, but also experienced bioinformaticians) to make the ideal use of the data at hand. DO - 10.1101/2020.01.10.901652 UR - http://dx.doi.org/10.1101/2020.01.10.901652 ER -
Other citation styles (ACS, ACM, IEEE, ...)
BibGuru offers more than 8,000 citation styles including popular styles such as AMA, ACN, ACS, CSE, Chicago, IEEE, Harvard, and Turabian, as well as journal and university specific styles! Give it a try now: Cite it now!