Updated car:: example

aurora-mareviv · May 14, 2019 · 77c1343 · 77c1343
1 parent 5292a6f
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Showing 17 changed files with 24 additions and 20 deletions.
diff --git a/.gitignore b/.gitignore
@@ -71,7 +71,8 @@ Network Trash Folder
 Temporary Items
 .apdisk
 
-
+# non-standard directories
+/ignore_mthapower/
 
 
 
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -4,7 +4,7 @@ Title: Sample Size and Power for Association Studies Involving
     Mitochondrial DNA Haplogroups
 Version: 0.1.1
 Authors@R: c(
-    person(c("A"), "Baluja", 
+    person(c("Aurora"), "Baluja", 
     role = c("aut", "cre"), 
     email = "[email protected]",
     comment = c(ORCID = "0000-0002-5204-0771"))

diff --git a/README.Rmd b/README.Rmd
@@ -11,12 +11,14 @@ output:
 knitr::opts_chunk$set(
   collapse = TRUE,
   comment = "#>",
-  fig.path = "images/README-"
+  fig.path = "man/figures/README-"
+  # fig.path = "docs/images/README-"
+  # fig.path = "images/README-"
   # base.dir = "./"
 )
 ```
 
-# mthapower  <img src="images/mthapower.png" align="right" width="100px" />
+# mthapower  <img src="./man/figures/mthapower.png" align="right" width="100px" />
 
 [![CRAN version](https://www.r-pkg.org/badges/version/mthapower)](https://cran.r-project.org/package=mthapower)
 [![Downloads from Rstudio mirror](https://cranlogs.r-pkg.org/badges/grand-total/mthapower)](https://www.r-pkg.org/pkg/mthapower)

diff --git a/README.md b/README.md
@@ -1,11 +1,11 @@
 
 <!-- README.md is generated from README.Rmd. Please edit that file -->
-mthapower <img src="images/mthapower.png" align="right" width="100px" />
-========================================================================
+mthapower <img src="./man/figures/mthapower.png" align="right" width="100px" />
+===============================================================================
 
 [![CRAN version](https://www.r-pkg.org/badges/version/mthapower)](https://cran.r-project.org/package=mthapower) [![Downloads from Rstudio mirror](https://cranlogs.r-pkg.org/badges/grand-total/mthapower)](https://www.r-pkg.org/pkg/mthapower)
 
-Calculate sample size and post-hoc power of association studies involving mitochondrial DNA haplogroups - Based on Samuels et al. AJHG, 2006. 78(4):713-720. [DOI:10.1086/502682](https://www.ncbi.nlm.nih.gov/pmc/PMC1424681)
+Calculate sample size and power for association studies involving mitochondrial DNA haplogroups - Based on Samuels et al. AJHG, 2006. 78(4):713-720. [DOI:10.1086/502682](https://www.ncbi.nlm.nih.gov/pmc/PMC1424681)
 
 Installation
 ------------
@@ -70,7 +70,7 @@ mydata %>%
 plot(mydata)
 ```
 
-![](images/README-example-1.png)
+![](man/figures/README-example-1.png)
 
 ### Power estimation
 
@@ -111,10 +111,10 @@ bindata$OR <- rep(factor(c(1.50,1.75,2,2.5)),
 # Create plot:
 # install.packages("car")
 library(car)
-scatterplot(power~ncases | OR, reg.line=FALSE,
-            smooth=FALSE, spread=FALSE,
-            boxplots=FALSE, span=0.25, by.groups=FALSE,
+scatterplot(power~ncases | OR, regLine=FALSE,
+            smooth=FALSE,
+            boxplots=FALSE,  by.groups=TRUE,
             data=bindata)
 ```
 
-![](images/README-example2b-1.png)
+![](man/figures/README-example2b-1.png)
diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/images/README-example-1.png b/docs/images/README-example-1.png
diff --git a/docs/images/README-example2b-1.png b/docs/images/README-example2b-1.png
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/news/index.html b/docs/news/index.html
diff --git a/docs/reference/index.html b/docs/reference/index.html
diff --git a/docs/reference/mthacases.html b/docs/reference/mthacases.html
diff --git a/docs/reference/mthapower.html b/docs/reference/mthapower.html
diff --git a/images/README-example-1.png b/images/README-example-1.png
diff --git a/images/README-example2b-1.png b/images/README-example2b-1.png
diff --git a/man/figures/README-example-1.png b/man/figures/README-example-1.png
diff --git a/man/figures/README-example2b-1.png b/man/figures/README-example2b-1.png
diff --git a/images/mthapower.png → man/figures/mthapower.png b/images/mthapower.png → man/figures/mthapower.png