diff --git a/NMDS.png b/NMDS.png new file mode 100644 index 0000000..be1f87b Binary files /dev/null and b/NMDS.png differ diff --git a/README.md b/README.md index dd23da0..3a3fa1a 100644 --- a/README.md +++ b/README.md @@ -1,14 +1,28 @@ # Initial NMDS ordinations and example diversity statistics for metabarcoding data -## This workflow and Jupyter binder shows a basic workflow to visualize metabarcoding data in R. +#### This workflow and Jupyter binder shows a basic workflow to visualize metabarcoding data in R. + +### Quick Start: +#### Click on the binder link, than click "knit" to make an html R Markdown. You may need to turn off your pop up blocker. + +### Example Output: +![Img](https://raw.githubusercontent.com/jasonarothman/Metabarcoding_viz/master/NMDS.png) + +### Summary: +#### This workflow will generate several example NMDS ordinations from an OTU/ASV table. +#### Please remove taxonomic assignments before using this workflow. +#### This plot will provide a visual representation of a given sample’s community composition in relation to all other samples. These plots allow you to quickly visualize your metabarcoding community by any metadata grouping (categorical) factor you choose. + ### Authors: -### Jason Rothman +#### Jason Rothman
-### Jane Lucas +#### Jane Lucas ### Links #### GitHub: https://github.com/jasonarothman/Metabarcoding_viz -#### Binder: [![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/jasonarothman/Metabarcoding_viz/master?filepath=rstudio) \ No newline at end of file +#### Binder: [![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/jasonarothman/Metabarcoding_viz/master?urlpath=rstudio) + +### We hope this is helpful! \ No newline at end of file diff --git a/install.R b/install.R index 6ae6ad4..410f429 100644 --- a/install.R +++ b/install.R @@ -1,2 +1,4 @@ -pkgs = c("ggplot2", "rmarkdown", "vegan", "RColorBrewer") -install.packages(pkgs) \ No newline at end of file +install.packages("ggplot2") +install.packages("rmarkdown") +install.packages("vegan") +install.packages("RColorBrewer") \ No newline at end of file