It looks like you recently joined the RIPL (Respiratory and Immunology Project) Effect Research Lab at Larkin University College of Biomedical Sciences. That’s great! We’re really glad to have you here, and will do what we can to make your time in the lab amazing. We hope you’ll learn a lot about respiratory health and immunology (also population health), develop new skills (coding, data analysis, writing, giving talks), make new friends, and have a great deal of fun throughout the whole process.

This lab manual was inspired by several others, and borrows heavily from them (Aly et al. 2017). It’s also a work in progress. If you have ideas about things to add, or what to clarify, talk to the PI (Dr. Felix Rivera-Mariani, the PI), the lab manager, or any of the current RIPLRT members.

When you join the lab, you’re expected to read this manual and sign a form indicating that you have done so. This signing form is found in our Team Drive of our GoogleTM account.

Welcome to the RIPLRT!

Note: the date listed above corresponds to the date the manual was updated. The date this manual was initially created was on September 20th, 2018.

Note: The repository for this lab manual can be found here: https://github.com/riplrt/LabManualRIPLRT. Also, this manual was developed, and continuously updated (as needed), through the R (R Core Team 2017) computer language, and employs the Bookdown (Xie 2018a), knitr (Xie 2018b), amd R-markdown (Allaire et al. 2018) packages.


Aly, Mariam, Nicholas Ruiz, Manasi Jayakumar, Hannah Tarder-Stoll, Halle R Dimsdale-Zucker, and Eren Gunseli. 2017. “Lab Manual for the Aly Lab at Columbia University.” Github. https://github.com/alylab/labmanual.

R Core Team. 2017. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. https://www.R-project.org/.

Xie, Yihui. 2018a. Bookdown: Authoring Books and Technical Documents with R Markdown. https://CRAN.R-project.org/package=bookdown.

Xie, Yihui. 2018b. Knitr: A General-Purpose Package for Dynamic Report Generation in R. https://CRAN.R-project.org/package=knitr.

Allaire, JJ, Yihui Xie, Jonathan McPherson, Javier Luraschi, Kevin Ushey, Aron Atkins, Hadley Wickham, Joe Cheng, Winston Chang, and Richard Iannone. 2018. Rmarkdown: Dynamic Documents for R. https://CRAN.R-project.org/package=rmarkdown.