update project description

Author: Adam M. Wilson

07_Reproducibile.html

@@ -432,7 +432,7 @@ <h2>Literate statistical programming</h2>
 <pre class="r"><code>time &lt;- format(Sys.time(), &quot;%a %d %b %X %Y&quot;)</code></pre>
 <p>The text and R code are interwoven in the output:</p>
 <p>The time is <code>`r time`</code></p>
-<p>The time is Sun 30 Oct 21:52:49 2016</p>
+<p>The time is Fri 04 Nov 11:56:53 2016</p>
 </div>
 <div id="literate-programming-for-and-against" class="section level2 columns-2">
 <h2>Literate programming: for and against</h2>

07_Reproducibile.md

@@ -178,7 +178,7 @@ The text and R code are interwoven in the output:
 
 The time is `` `r time` ``
 
-The time is Sun 30 Oct 21:52:49 2016
+The time is Fri 04 Nov 11:56:53 2016
 
 
 

07_Reproducibile_files/figure-html/unnamed-chunk-5-1.png

@@ -1,15 +1,18 @@
 ---
 title: "Demo"
 author: "Adam M. Wilson"
-date: "October 31, 2015"
-output: 
+date: "October 31, 2016"
+output:
   html_document:
-      keep_md: true
-      type: standalone
+    keep_md: yes
+    type: standalone
+  word_document: default
 ---
 
 
-```{r, message=F}
+```{r, message=F, echo=F}
+knitr::opts_chunk$set(echo=F, cache=T)
+
 library(dplyr)
 library(ggplot2)
 library(maps)
@@ -48,6 +51,15 @@ ggplot(d,aes(x=longitude,y=latitude))+
   coord_equal()
 ```
 
+```{r}
+x=rnorm(10) 
+y=rnorm(10)
+lm1=lm(y~x)
+plot(y~x)
+```
+
+The regression slope was `r coef(lm1)[2]`.
+
 ## Conclusion
 
 The spatial distribution of `r sp` is mostly limited to the United states.  Or, more likely, these data are limited to the United States...

07_assets/demo/Demo.Rmd

@@ -1,15 +1,9 @@
 # Demo
 Adam M. Wilson  
-October 31, 2015  
+October 31, 2016  
 
 
 
-```r
-library(dplyr)
-library(ggplot2)
-library(maps)
-library(spocc)
-```
 
 # Introduction
 
@@ -24,28 +18,14 @@ Figure 1: Licensed under CC BY-SA 3.0 via [Wikimedia Commons](https://commons.wi
 I aquired all available occurrence records for the American robin (_Turdus migratorius_) from the [Global Biodiversity Information Facility](gbif.org) and mapped them.
 
 
-```r
-## define which species to query
-sp='Turdus migratorius'
-
-## run the query and convert to data.frame()
-d = occ(query=sp, from='ebird',limit = 1000) %>% occ2df()
-```
 
 ## Results
 
+![](Demo_files/figure-html/unnamed-chunk-3-1.png)<!-- -->
 
-```r
-# Load coastline
-map=map_data("world")
-
-ggplot(d,aes(x=longitude,y=latitude))+
-  geom_polygon(aes(x=long,y=lat,group=group,order=order),data=map)+
-  geom_point(col="red")+
-  coord_equal()
-```
+![](Demo_files/figure-html/unnamed-chunk-4-1.png)<!-- -->
 
-![](Demo_files/figure-html/unnamed-chunk-3-1.png)<!-- -->
+The regression slope was -0.6019797.
 
 ## Conclusion
 

07_assets/demo/Demo.html

@@ -86,7 +86,7 @@ The first draft of your project will be assessed by your peers in UBlearns.  You
 * Expose you to the work of your peers so you know what others are working on
 * Provide an opportunity to share your knowledge to improve their project
 
-The grading of the first draft will be limited to the Title (<25 words), Introduction  [~ 200 words], and Materials and methods [~ 200 words] sections.  You should have acquired (downloaded, etc) all the data you plan to use and worked out most of the details of the methods (either in code or detailed descriptions), though you may not have any results or summary figures yet.
+The grading of the first draft will be limited to the Title (<25 words), Introduction  [~ 200 words], and Materials and methods [~ 200 words] sections.  You should have acquired (downloaded, etc) or at least identified all the data you plan to use and worked out most of the details of the methods (either in code or detailed descriptions), though you may not have any results or summary figures yet.  You only need to upload the narrative sections mentioned above (Title, Introduction, and Methods) in a PDF.  You do not need to upload any data or code.  If you have made figures already, please include them in your document, but they are not required.
 
 ### Second Draft
 The more complete the second draft, the more feedback I'll be able to provide to ensure an excellent final project.  So it's in your interest to finish as much as possible.    In addition to the details from the first draft, I would like to see at least one figure illustrating the data you are working with.  If you include drafts of the results and discussion/conclusion I will also give you feedback on those sections.