Wordcloud of PubMed searches

At the start of this year I created a Twitter account that automatically tweets out papers related to transcriptomes, i.e. a Twitter literature bot. This idea isn't new and there are over 200 Twitter literature bots. However, I wrote my Twitter bot using R (and using the RISmed package to search PubMed for papers) and it's running on an EC2 instance, which is part of Amazon Web Services. I went with this approach simply because I wanted to try out Amazon Web Services; I will have to find another server to run my Twitter bot when my free period is over.

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Transcriptome feed using R

I've always wanted to create a transcriptome feed on Twitter, posting the results of daily PubMed searches. Well today I finally got around to it. Firstly, I made a new Twitter account; annoyingly all the Twitter handles I wanted were taken by inactive users. I decided to go with @transcriptomes. Next, I made a new Twitter application that's associated with my new Twitter account (I set permissions to "Read, Write and Access direct messages"), and I set it up so that I could use twitteR to communicate with this app. For this post, I'm using OS X 10.10.1 on a MacBook Air.

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Using the R twitteR package

  • Updated 2014 November 26th to reflect changes in the tm package
  • Updated 2015 February 18th to reflect changes in the twitteR package

A short post on using the R twitteR package for text mining and using the R wordcloud package for visualisation. I did this on my Windows machine, which has this problem. I've updated the code due to changes in the recent update of the twitteR package. In addition, I have included a screenshot below from my Twitter Apps Keys and Access Tokens page to indicate where to get the consumer_key, consumer_secret, access_token, and access_secret values.

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I've joined Twitter

Today while reading a paper, I found some interesting one-liner facts. They are way too short to create a post on but I would like to make a repository of them. What better place to store these facts than Twitter!

You can follow me on Twitter for a list of facts on molecular biology and on bioinformatics that I didn't know or have forgotten about over the years.

Update 7th April 2013

I've been using Twitter for almost a year now and have found better use of it then what I had originally planned. I've learned of interesting papers, software and entertaining bits and pieces from the people I follow. I've started to play around with the R TwitteR package and started to read a book on Twitter, called The Tao of Twitter. It's quite business orientated but I'm enjoying the read.

The main concept of the book is describing the Tao, which refers to these three concepts:

  1. Targeted connections
  2. Meaningful content
  3. Authentic helpfulness

where by you can get the most out of Twitter if you network with the right people, share information that is useful to others and are generally perceived as being genuine when it comes to helping others.