package reference to #### {}

MonkmanMH · Aug 3, 2019 · 5c45aa9 · 5c45aa9
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diff --git a/03_data_science_practice.Rmd b/03_data_science_practice.Rmd
@@ -114,7 +114,7 @@ Emily Robinson, [Red Flags in Data Science Interviews](http://hookedondata.org/R
 
 ## R packages supporting robust workflow
 
-### {janitor} -
+### `{janitor}`
 
 [{janitor}](sfirke.github.io/janitor/index.html) -- "has simple functions for examining and cleaning dirty data. It was built with beginning and intermediate R users in mind and is optimized for user-friendliness. Advanced R users can already do everything covered here, but with janitor they can do it faster and save their thinking for the fun stuff."
 
@@ -123,7 +123,7 @@ CRAN: [janitor: Simple Tools for Examining and Cleaning Dirty Data](https://cran
 GitHub: [sfirke/janitor](https://github.com/sfirke/janitor)
 
 
-### {packrat} -
+### `{packrat}`
 
 [{Packrat} is a dependency management system for R](http://rstudio.github.io/packrat/)
 
@@ -137,7 +137,7 @@ GitHub: [rstudio/packrat](https://github.com/rstudio/packrat)
 Miles McBain (2019-04-09) [A workflow for lightweight R dependency management](https://milesmcbain.xyz/packrat-lite/)
 
 
-### {usethis} - 
+### `{usethis}`
 
 "usethis is a workflow package: it automates repetitive tasks that arise during project setup and development, both for R packages and non-package projects"
 

diff --git a/04_using_R.Rmd b/04_using_R.Rmd
@@ -74,7 +74,7 @@ Jessica Minnier, 2019-07-29, [Sharpening the Tools in Your Data Science Toolbox]
 ### The R-Python interface
 
 
-#### {feather}
+#### `{feather}`
 
 {feather} is designed to read and write feather files, a lightweight binary columnar data store designed for maximum speed. There is a [parallel Python package](https://github.com/wesm/feather).
 
@@ -85,7 +85,7 @@ Jessica Minnier, 2019-07-29, [Sharpening the Tools in Your Data Science Toolbox]
 
 
 
-#### {reticulate}
+#### `{reticulate}`
 
 The reticulate package provides a comprehensive set of tools for interoperability between Python and R.
 
@@ -100,13 +100,14 @@ The reticulate package provides a comprehensive set of tools for interoperabilit
 
 
 
-#### {rpy2}
+#### `{rpy2}`
 
 
 JD Long, twitter thread on {rpy2} documentation: [twitter thread](https://twitter.com/CMastication/status/1157645891672707072?s=20)
 
 
 
+
 ***
 
 ## The R community

diff --git a/13_api.Rmd b/13_api.Rmd
@@ -34,7 +34,7 @@ Jose Gonzalez, [Using Google Maps API and R](https://gist.github.com/josecarlosg
 
 ### Packages
 
-#### `httr`
+#### `{httr}`
 
 CRAN: [httr: Tools for Working with URLs and HTTP](https://cran.r-project.org/package=httr/)
 

diff --git a/15_anonymity_confidentiality.Rmd b/15_anonymity_confidentiality.Rmd
@@ -182,9 +182,9 @@ Meghan O’Malley, Lawrence R. Ernst, ["Practical Considerations in Applying the
 John Mount (1012) ["Modeling Trick: Masked Variables"](http://www.win-vector.com/blog/2012/07/modeling-trick-masked-variables/)
 
 
-### **sdcMicro**
+### `{sdcMicro}`
 
-`sdcMicro` is the best available SDC tool I have found in the R space, so I've given it top-billing rather than my usual alpabetical listing.
+{sdcMicro} is the best available SDC tool I have found in the R space, so I've given it top-billing rather than my usual alpabetical listing.
 
 **package**
 
@@ -209,7 +209,7 @@ Daniel Abril, Guillermo Navarro-Arribas and Vicenç Torra (2015) ["Data Privacy
 
 
 
-### **sdcMicroGUI**
+### `{sdcMicroGUI}`
 
 **package**
 
@@ -221,12 +221,12 @@ Matthias Templ, Bernhard Meindl and Alexander Kowarik, [Tutorial for sdcMicroGUI
 
 
 
-### **sdcTable**
+### `{sdcTable}`
 
 CRAN page: [sdcTable: Methods for Statistical Disclosure Control in Tabular Data](https://cran.r-project.org/package=sdcTable)
 
 
-### **easySdcTable**
+### `{easySdcTable}`
 
 ** package**
 
@@ -236,7 +236,7 @@ vignette: [`easySdcTable` Vignette](https://cran.r-project.org/package=easySdcTa
 
 
 
-### **digest**
+### `{digest}`
 
 **package**
 
@@ -248,7 +248,7 @@ Jan Górecki (2014), ["Data anonymization in R"](https://jangorecki.github.io/bl
 * [alternate source](https://www.r-bloggers.com/data-anonymization-in-r/)
 
 
-### **obfuscateR**
+### `{obfuscateR}`
 
 (Note: this package has not been submitted to CRAN, and is clearly in development/stalled)
 
@@ -263,3 +263,5 @@ github page: [PedramNavid/obfuscateR](https://github.com/PedramNavid/obfuscateR)
 Benjamin Bengfort, ["A Practical Guide to Anonymizing Datasets with Python & Faker: How Not to Lose Friends and Alienate People"](http://blog.districtdatalabs.com/a-practical-guide-to-anonymizing-datasets-with-python-faker), 2016
 
 
+
+-30-
diff --git a/21_data_reading_fileformat.rmd b/21_data_reading_fileformat.rmd
@@ -23,7 +23,7 @@ In particular, survey data
 [R database interfaces](http://www.burns-stat.com/r-database-interfaces/)
 
 
-### {rio} -
+### `{rio}`
 
 **package**
 
@@ -33,7 +33,7 @@ vignette: [Import, Export, and Convert Data Files](https://cran.r-project.org/pa
 
 
 
-### {googledrive} -
+### `{googledrive}`
 
 **package**
 
@@ -43,7 +43,7 @@ tidyverse page: [`googledrive`](https://tidyverse.github.io/googledrive/)
 
 
 
-### {foreign} -
+### `{foreign}`
 
 **package**
 
@@ -54,7 +54,7 @@ CRAN page: [foreign: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, W
 * [How to open an SPSS file into R](http://www.milanor.net/blog/how-to-open-an-spss-file-into-r/), by Davide Massidda (2014-03-26)
 
 
-### {haven} - 
+### `{haven}` 
 
 **package**
 
@@ -70,14 +70,14 @@ Luis D. Verde, 2018-12-14, [Tidyeval meets PDF table hell](http://luisdva.github
 
 ## Stata files
 
-### {read.dta} -
+### `{read.dta}`
 
 Reads a file in Stata version 5–12 binary format into a data frame.
 
 CRAN page: [`read.dta`: Read Stata Binary Files](http://stat.ethz.ch/R-manual/R-devel/library/foreign/html/read.dta.html)
 
 
-### {readstata13} -
+### `{readstata13}`
 
 Function to read and write the 'Stata' file format.
 
@@ -87,13 +87,13 @@ CRAN Page: [readstata13: Import 'Stata' Data Files](readstata13: Import 'Stata'
 
 ## Time series database files
 
-### {TSdbi} and related packages
+### `{TSdbi}` and related packages
 
 **package**
 
 CRAN page: [TSdbi: Time Series Database Interface]( https://CRAN.R-project.org/package=TSdbi)
 
-Note: `TSdbi` has some related extension packages:
+Note: {TSdbi} has some related extension packages:
 
 * CRAN page: [TSdata: 'TSdbi' Illustration](https://cran.r-project.org/package=TSdata)
 *  This package gives an overview and usage examples for all the `TSdbi` family of packages

diff --git a/40_data_visualization.Rmd b/40_data_visualization.Rmd
@@ -129,7 +129,7 @@ Medium's [Data Visualization Society](https://medium.com/data-visualization-soci
 
 
 
-## {ggplot2] -- the pre-eminent way to create charts and graphs in R
+## `{ggplot2}` -- the pre-eminent way to create charts and graphs in R
 
 * [{ggplot2}: part of the tidyverse](http://ggplot2.tidyverse.org/index.html) -- reference materials, examples, etc etc. Start here.
 
@@ -157,7 +157,7 @@ There are many extension packages that allow you to make other visualizations in
 
 * Gallery of {ggplot2} extensions: [ggplot2-exts.org/gallery/]({ggplot2} extensions - gallery )
 
-#### {ggfittext}
+#### `{ggfittext}`
 
 "ggplot2 geoms to fit text into boxes"
 
@@ -197,7 +197,7 @@ Colour is a vital part of good data visualization; the following links support t
 * [R color cheatsheet](https://www.nceas.ucsb.edu/~frazier/RSpatialGuides/colorPaletteCheatsheet.pdf)
 
 
-### {colorspace}
+### `{colorspace}`
 
 "A Toolbox for Manipulating and Assessing Colors and Palettes"
 
@@ -220,7 +220,7 @@ Cynthia A. Brewer, Geoffrey W. Hatchard, and Mark A. Harrower (2003) ColorBrewer
 
 
 
-#### the R package [{RColorBrewer}]()
+#### the R package `{RColorBrewer}`
 
 * [RColorBrewer's Palettes](https://www.r-graph-gallery.com/38-rcolorbrewers-palettes/) from The R Graph Gallery
 

diff --git a/41_chart_types.Rmd b/41_chart_types.Rmd
@@ -91,7 +91,7 @@ A.K.A. bar and line graphs. Don't use them!
 
 ## Genealogical data
 
-Package: {ggeneology}
+#### `{ggeneology}`
 
 * Lindsay Rutter, Susan VanderPlas, Dianne Cook, Michelle A. Graham (2019) ["ggenealogy: An R Package for Visualizing Genealogical Data"](https://www.jstatsoft.org/article/view/v089i13), _Journal of Statistical Software_, Vol 89 (13)
 
@@ -140,7 +140,7 @@ Haley Jeppson and Heike Hofmann (2018-09-12) [Mosaic plots with ggplot2](https:/
 Hadley Wickham and Heike Hofmann, ["Product Plots"][@Wickham-Hofmann_2011]
 
 
-[Mosaic or Marimekko charts](https://learnr.wordpress.com/2009/03/29/ggplot2_marimekko_mosaic_chart/) (in ggplot2)
+[Mosaic or Marimekko charts](https://learnr.wordpress.com/2009/03/29/ggplot2_marimekko_mosaic_chart/) (in {ggplot2})
 
 
 Perceptual Edge, [A Design Problem](https://www.perceptualedge.com/example13.php)
@@ -153,8 +153,11 @@ Alberto Cairo (2019-07-09) [A mosaic plot that exemplifies good design practices
 
 ## Network graphs
 
+#### `{DiagramR}`
+
 {DiagramR}: Graph and network visualization using tabular data in R
 
+
 * [github repo](https://github.com/rich-iannone/DiagrammeR)
 
 * CRAN page: [DiagrammeRsvg: Export DiagrammeR Graphviz Graphs as SVG](https://cran.r-project.org/package=DiagrammeRsvg)
@@ -182,7 +185,7 @@ Lauren Boucher (2016-03-10) [What are the different types of population pyramids
 
 [Population Pyramids for Select Canadian Provinces, 2015-2035](https://github.com/atheriel/visualizations/tree/master/provincial-demography)
 
-* uses `ggplot2` to create pyramids
+* uses {ggplot2} to create pyramids
 
 [Simpler population pyramid in ggplot2](https://stackoverflow.com/questions/14680075/simpler-population-pyramid-in-ggplot2)
 
@@ -219,7 +222,10 @@ acarioli (2016-01-11) [Population pyramids in ggplot](https://aledemogr.wordpres
 
 ** ridgeline plots in R **
 
-[`ggridges` package by Claus Wilke](https://cran.r-project.org/package=ggridges) -- CRAN page
+
+#### `{ggridges}`
+
+[{ggridges} package by Claus Wilke](https://cran.r-project.org/package=ggridges) -- CRAN page
 
 Alex Whan, 2016-03-24, [ggplot2 and Joy Division](http://alexwhan.com/2016-03-24-joy-division-plot) - at Incrutable Errors
 
@@ -259,7 +265,7 @@ Cole Nussbaumer Knaflic, 2015, _Storytelling with Data_, pp.47-49.
 Kyle Walker, 2015-05-17, [Global population change with a slopegraph in ggplot2](https://rpubs.com/walkerke/slopegraph)
 
 
-### `slopegraph`
+#### `{slopegraph}`
 
 [github](https://github.com/leeper/slopegraph)
 
@@ -269,13 +275,17 @@ Kyle Walker, 2015-05-17, [Global population change with a slopegraph in ggplot2]
 
 ## Ternary plots
 
+#### `{ggtern}`
+
 [`ggtern` - an extension to `ggplot2`](http://www.ggtern.com/) for plotting ternary diagrams.
 
 
 
 
 ## Waffle plots
 
+#### `{waffle}`
+
 **Package**
 
 CRAN page: [waffle: Create Waffle Chart Visualizations in R](https://cran.r-project.org/package=waffle)

diff --git a/50_quantitative_methods.Rmd b/50_quantitative_methods.Rmd
@@ -62,22 +62,22 @@ Martin Monkman, 2013-12-01, ["A few random things"](http://bayesball.blogspot.ca
 [correlated random variables: a gist](https://gist.github.com/MonkmanMH/a8b58f9cb140d702139b75467806c6d1)
 
 
-#### Random() {base R}
+#### Random() `{base R}`
 
 **package**
 
 CRAN page: [Random {base}: Random number generation](http://stat.ethz.ch/R-manual/R-devel/library/base/html/Random.html)
 
 
 
-#### {random}
+#### `{random}`
 
 **package**
 
 CRAN page: [random: True Random Numbers using RANDOM.ORG](https://cran.r-project.org/package=random/)
 
 
-#### {sampling}
+#### `{sampling}`
 
 **package**
 
@@ -88,3 +88,5 @@ CRAN page: [sampling: Survey Sampling](https://cran.r-project.org/package=sampli
 Examples of how the package can be applied
 
 
+
+-30-
diff --git a/51_bayesian.Rmd b/51_bayesian.Rmd
@@ -52,7 +52,7 @@ Tarek Amr, ["Experimenting the Bayesian way"](https://www.datascience.com/blog/e
 Arranged by package
 
 
-#### {bayestestR}
+#### `{bayestestR}`
 
 **package**
 
@@ -63,14 +63,14 @@ GitHub page: [bayestestR: Utilities for analyzing Bayesian models and posterior
 easystats (2019-04-15) [Describe and understand Bayesian models and posteriors using bayestestR](https://easystats.github.io/blog/posts/bayestestr_presentation/)
 
 
-#### {HydeNet}
+#### `{HydeNet}`
 
 CRAN: [HydeNet: Hybrid Bayesian Networks Using R and JAGS](https://cran.r-project.org/web/packages/HydeNet/)
 
 Vignette: [Decision Network (Influence Diagram) Analyses in HydeNet](https://cran.r-project.org/web/packages/HydeNet/vignettes/DecisionNetworks.html)
 
 
-#### {rjags}
+#### `{rjags}`
 
 **package**
 
@@ -81,7 +81,7 @@ CRAN page: [rjags: Bayesian Graphical Models using MCMC](https://cran.r-project.
 Alicia Johnson: [Bayesian modeling with {rjags}] {link to DataCamp course removed}
 
 
-#### {tidybayes}
+#### `{tidybayes}`
 
 **package**