From 641412687cecfaf415a821650f1ed822dbf0fa26 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Camilo=20Garc=C3=ADa?= <cgarci39@eafit.edu.co>
Date: Thu, 19 Aug 2021 16:16:52 -0500
Subject: [PATCH] Adding datapasta and its citation

---
 README.Rmd   |  3 ++-
 README.md    | 10 +++++++++-
 packages.bib |  8 ++++++++
 3 files changed, 19 insertions(+), 2 deletions(-)

diff --git a/README.Rmd b/README.Rmd
index 950f6ea..6c4f718 100644
--- a/README.Rmd
+++ b/README.Rmd
@@ -24,6 +24,7 @@ library(kableExtra)
 library(tidyr)
 library(ggplot2)
 library(forcats)
+library(datapasta)
 ```
 
 # Data layers for the phylogenetic recosntruction (Fig 2.B-D) of **Bacillus** spp.
@@ -31,7 +32,7 @@ library(forcats)
 
 ## Data importing and processing
 
-The first step in this analysis is importing the summarized output that was created using the `populate_script()` after selecting each prophage prediction using de `datapasta` package.
+The first step in this analysis is importing the summarized output that was created using the `populate_script()` after selecting each prophage prediction using de `datapasta` package [@R-datapasta].
 
 <details open>
 <summary>Predicted prophages retrieved on 2021-02-19</summary>
diff --git a/README.md b/README.md
index f58a376..1b1a3ca 100644
--- a/README.md
+++ b/README.md
@@ -14,7 +14,7 @@ rmarkdown and knitr packages were used to generate this report (Xie
 
 The first step in this analysis is importing the summarized output that
 was created using the `populate_script()` after selecting each prophage
-prediction using de `datapasta` package.
+prediction using de `datapasta` package (McBain et al. 2021).
 
 <details open>
 <summary>
@@ -359,6 +359,14 @@ Forward-Pipe Operator for r*.
 
 </div>
 
+<div id="ref-R-datapasta" class="csl-entry">
+
+McBain, Miles, Jonathan Carroll, Sharla Gelfand, Suthira Owlarn, and
+Garrick Aden-Buie. 2021. *Datapasta: R Tools for Data Copy-Pasta*.
+<https://github.com/milesmcbain/datapasta>.
+
+</div>
+
 <div id="ref-R-tibble" class="csl-entry">
 
 Müller, Kirill, and Hadley Wickham. 2021. *Tibble: Simple Data Frames*.
diff --git a/packages.bib b/packages.bib
index db6aa3b..bcd1721 100644
--- a/packages.bib
+++ b/packages.bib
@@ -1,3 +1,11 @@
+@Manual{R-datapasta,
+  title = {datapasta: R Tools for Data Copy-Pasta},
+  author = {Miles McBain and Jonathan Carroll and Sharla Gelfand and Suthira Owlarn and Garrick Aden-Buie},
+  note = {R package version 3.1.1},
+  url = {https://github.com/milesmcbain/datapasta},
+  year = {2021},
+}
+
 @Manual{R-dplyr,
   title = {dplyr: A Grammar of Data Manipulation},
   author = {Hadley Wickham and Romain François and Lionel Henry and Kirill Müller},