Skip to content

Instantly share code, notes, and snippets.

View kamermanpr's full-sized avatar

Peter Kamerman kamermanpr

9 followers · 0 following
View GitHub Profile
@kamermanpr
kamermanpr / rstudio_ami_guide.md
Created September 18, 2018 09:34 — forked from jaeddy/rstudio_ami_guide.md
steps for creating and configuring a new AMI with RStudio Server

Building a new RStudio Server AMI

The steps below can be followed to create a new AMI for use with Amazon EC2 instances that includes the latest versions of R, RStudio, and RStudio Server. The idea is inspired by the work of Louis Aslett, who creates and hosts his own public AMIs for RStudio. My own goal was to create an AMI with RStudio v1.0.0 or higher, such that I could use the recent R Notebooks feature. However, the instructions should generally apply for whenever you might be impatient accessing the latest version of R-related software on AWS (via an interactive browser interface...).

Getting started

  1. Create a new EC2 instance with the latest Ubuntu AMI (should be fine to do with Spot); based on Louis Aslett's AMI, I opted to include a general purpose SSD EBS volume with 10GB of storage space
  2. SSH into the instance

Downloading/installing RStudio Server

@kamermanpr
kamermanpr / RArticleNetwork.R
Created January 2, 2016 14:41 — forked from mbarnkob/RArticleNetwork.R
R code for generating a network of referring articles from pubmed. More info here: http://mikebarnkob.dk/2015/generating-an-article-network-using-rentrez-and-igraph-in-r/
#Article Network ver 2
#============================
# This program will scrape all citing articles surrounding one main article and
# create: 1) a list of most cited articles, 2) lists of main authors, 3) network of articles
# Mike Barnkob, December 28th 2015.
# www.mikebarnkob.dk
#Background and references
#1. https://cran.r-project.org/web/packages/rentrez/vignettes/rentrez_tutorial.html#advanced-counting