dd

README.md

@@ -284,6 +284,53 @@ libraries that will be used by later code chunks.
     load('analysis-output/results.Rda')
     ```
 
+A Note About Latex Styles and the YAML Header
+=============================================
+
+Getting the pandoc default latex and the latex style you prefer to work
+can be a little tricky. In the root directory of this repository there
+is a file called `style-headers.md` This contains a few complete YAML
+headers that should work if you copy and paste them to replace the
+current manuscript's YAML header.
+
+Collaborating with Microsoft Word Users
+=======================================
+
+Many of us have colleagues who expect to recieve and be welcomed to edit
+Microsoft Word documents. Fortunately, reproducability can be
+maintained. With the `manuscript-example.Rmd` file open, notice that the
+`knit PDF` button is actually a drop down menu and `knit Word` is an
+option. If you click it, it will return to you a Microsoft Word document
+that you can deliver to your colleague or professor.
+
+They can be formatted with a .docx template. See the 'Style Reference\`
+description on
+[this](http://rmarkdown.rstudio.com/word_document_format.html) page.
+Using the template will keep you having to format the whole thing every
+time you update your colleagues and professors.
+
+You might have noticed that there is also a `tablesandfigures.Rmd` file
+in the root directory. This is for users who will need to produce Word
+documents. I have found no clean way to produce decently formatted
+tables and figures in Word using this method. I recommend keeping tables
+and figures in a separate docuemnt that you always render as a PDF, and
+a separate file for the manuscript text.
+
+Equations are still a problem. Latex is ignored by pandoc when producing
+Word documents so you will have to replace your equations. See [Iguana
+Tex](http://www.jonathanleroux.org/software/iguanatex/) for the ability
+to conver latex equations to pictures that can be pasted into the Word
+document.
+
+Starting Your Own Reproducable Project
+======================================
+
+Once you understand how all the peices fit together you can modify these
+files to conduct your own reproducable project. Just make sure your
+`data-raw` is accessed by your analysis scripts and that your results
+are stored in the `anlaysis-output` folder. Then make sure your
+manuscript pulls the data and analysis results automatically.
+
 References
 ==========
 

README.rmd

@@ -191,6 +191,22 @@ In the opening code chunk, we specify that we want to load the results from the
     source('data-raw/fetch-raw-data.R')
     load('analysis-output/results.Rda')
     ```
+# A Note About Latex Styles and the YAML Header
 
+Getting the pandoc default latex and the latex style you prefer to work can be a little tricky. In the root directory of this repository there is a file called `style-headers.md` This contains a few complete YAML headers that should work if you copy and paste them to replace the current manuscript's YAML header. 
+
+# Collaborating with Microsoft Word Users
+
+Many of us have colleagues who expect to recieve and be welcomed to edit Microsoft Word documents. Fortunately, reproducability can be maintained. With the `manuscript-example.Rmd` file open, notice that the `knit PDF` button is actually a drop down menu and `knit Word` is an option. If you click it, it will return to you a Microsoft Word document that you can deliver to your colleague or professor. 
+
+They can be formatted with a .docx template. See the 'Style Reference` description on [this](http://rmarkdown.rstudio.com/word_document_format.html) page. Using the template will keep you having to format the whole thing every time you update your colleagues and professors. 
+
+You might have noticed that there is also a `tablesandfigures.Rmd` file in the root directory. This is for users who will need to produce Word documents. I have found no clean way to produce decently formatted tables and figures in Word using this method. I recommend keeping tables and figures in a separate docuemnt that you always render as a PDF, and a separate file for the manuscript text.
+
+Equations are still a problem. Latex is ignored by pandoc when producing Word documents so you will have to replace your equations. See [Iguana Tex](http://www.jonathanleroux.org/software/iguanatex/) for the ability to conver latex equations to pictures that can be pasted into the Word document. 
+
+# Starting Your Own Reproducable Project
+
+Once you understand how all the peices fit together you can modify these files to conduct your own reproducable project. Just make sure your `data-raw` is accessed by your analysis scripts and that your results are stored in the `anlaysis-output` folder. Then make sure your manuscript pulls the data and analysis results automatically. 
 
 # References

style-headers.md

@@ -1,4 +1,19 @@
 
+# Plain Working Paper
+
+```
+---
+title: "A Very Serious Analysis of the Stationarity of Corn and Soybean Prices"
+author: "Peter Economist, Paul Economist, Mary Economist"
+date: '`r format(Sys.time(), "%B %d, %Y")`'
+output: 
+  pdf_document:
+    fig_caption: yes
+header-includes: \usepackage{setspace} \doublespacing
+bibliography: bibliography.bib
+---
+```
+
 # AJAE
 
 ```

tablesandfigures-example.Rmd

@@ -7,24 +7,32 @@ documentclass: ajae
 bibliography: bibliography.bib
 ---
 
-# Tables and Figures
 
-```{r, echo=FALSE, warning = FALSE, message = FALSE, comment = NA}
-load('analysis-output/results.Rda')
+```{r, warning = FALSE, message = FALSE, echo=FALSE}
 library(xtable)
-library(vars)
-
-
-summary(var_model)
-
-
-
+library(ggplot2)
+library(ggfortify)
+library(gridExtra)
+source('data-raw/fetch-raw-data.R')
+load('analysis-output/results.Rda')
 ```
 
 
+# Tables and Figures
 
-```{r, echo=FALSE, warning = FALSE, message = FALSE, fig.cap = 'Diganostics' }
+```{r, echo=FALSE, warning = FALSE, message = FALSE, results = "asis"}
+t = list()
+t[[1]] <- xtable(adf[[1]]@testreg, caption = "ADF Results for Corn")
+t[[2]] <- xtable(adf[[2]]@testreg, caption = "ADF Results for Soybeans")
+print.xtable(t[[1]], caption.placement = 'top', comment = FALSE)
+```
 
-plot(stability(var_model), nc = 2)
+```{r, echo=FALSE, warning = FALSE, message = FALSE, results = "asis"}
+print.xtable(t[[2]], caption.placement = 'top', comment = FALSE)
+```
 
-```
+```{r, echo=FALSE, warning = FALSE, message = FALSE, fig.cap = 'Corn and Soybean Prices' }
+plot1 <- autoplot(CZ2016, ylab = "Corn Prices, cents/bu") + theme_bw()
+plot2 <- autoplot(SX2016, ylab = "Soybean Prices, cents/bu") + theme_bw()
+grid.arrange(plot1, plot2, ncol=1)
+```