Update README.md

README.md

@@ -8,27 +8,31 @@ Regional association plots for genetic and epigenetic data. gassocplot2 is now [
 * stack_assoc_plot_save - saves a PNG of the stack_assoc_plot.  
 
 ## Installation
-1. install.packages("devtools")
-2. library(devtools) 
-3. install_github("jrs95/gassocplot")
-4. library(gassocplot)
+```
+install.packages("devtools")
+library(devtools) 
+install_github("jrs95/gassocplot")
+library(gassocplot)
+```
 
 ## Examples
-\#\#\# assoc_plot  
+```
+### assoc_plot  
 markers <- gassocplot::test_assoc_plot  
 head(markers)  
 corr <- gassocplot::test_corr # this is correlation not correlation squared and has to be ordered in the same way as the markers data frame  
 plot <- assoc_plot(markers, corr)   
 assoc_plot_save(plot, "assoc_plot_test.png")  
 
-\#\#\# stack_assoc_plot  
+### stack_assoc_plot  
 markers <- gassocplot::test_stack_assoc_plot_markers  
 head(markers)  
 z <- gassocplot::test_stack_assoc_plot_associations  
 head(z)  
 corr <- gassocplot::test_corr # this is correlation not correlation squared and has to be ordered in the same way as the markers data frame  
 plot <- stack_assoc_plot(markers, z, corr, traits=c("Trait 1", "Trait 2"))  
 stack_assoc_plot_save(plot, "stack_assoc_plot_test.png", 2)
+```
 
 ## Linkage disequilibrium information
 The [LDlinkR](https://cran.r-project.org/web/packages/LDlinkR/index.html) package can be used to obtain linkage disequilibrium matrices from 1000G using the LDmatrix function. Note the matrix from this function would have to be square rooted and ordered in the same way as the markers data frame.