Picturing Trees
In this post I like to illustrate the R package “ape” for phylogenetic trees for the purpose of assembling trees. The function read.tree creates a tree from a text...continue reading.
R News from another blog for R community
Got acknowledged in a paper ^^
During the weekend while I was talking with a friend and former colleague, I realized that my name was mentioned in the acknowledgments section of a paper 🙂 I haven’t...continue reading.
Introducing R and Biostatistics to first year LCG students (2012 version)
On Friday November 9th I’ll be giving a talk to the first year students from the Undergraduate Program on Genomic Sciences (LCG in Spanish) during their “Seminar 1: Introduction to...continue reading.
Super basic Illustrator: event invitation
Amanda and I are organizing a cultural student mixer for students in our department. One of the things we needed to do was invite everyone to attend. I like using...continue reading.
Force R Help HTML Server to Always Use the Same URL Port
The below code shows how to configure the help.ports option in R such that the built-in R help server always uses the same URL port. Just add it to the...continue reading.
Visualizing colors()
The other day I learnt about the existance of the colors() vector in R which specifies all the character-based colors like “light blue”, “black”, etc. So I made a simple...continue reading.
Download Stock Price Online with R
library(chron) library(zoo) # STOCK TICKER OF Fifth Third Bancorp stock <- ‘FITB’ # DEFINE STARTING DATE start.date <- 1 start.month <- 1 start.year <- 2012 # DEFINE ENDING DATE end.date...continue reading.
Bitbucket revamped
Bitbucket announced their new “look” today. The goal is to make it more team friendly but I guess that they also wanted to make it look fresh. For example, the...continue reading.
Why aren’t all of our graphs interactive?
During the last pre-happy hour seminar, Karl Broman talked about Why aren’t all of our graphs interactive? I didn’t know, but a few years ago Karl worked in the department and clearly promoted...continue reading.
Fit and Visualize A MARS Model
################################################# ## FIT A MULTIVARIATE ADAPTIVE REGRESSION ## ## SPLINES MODEL (MARS) USING MDA PACKAGE ## ## DEVELOPED BY HASTIE AND TIBSHIRANI ## ##############################################…continue reading.
An Online Bioinformatics Curriculum
Last week I talked about online courses in my JHSPH-Biostat through Coursera post. Now I’m back to comment on An Online Bioinformatics Curriculum by David B. Searls. Sur Herrera pointed out this paper...continue reading.
02/27/12 PHD comic: ‘Inspired by true events’
02/27/12 PHD comic: ‘Inspired by true events’ Totally what happened to me on Monday night! (whenever I saved this post as a draft :P, but it’s happening again now)continue reading.
Check all your accounts for emails at once in Gmail
Do you use Gmail as your primary email account? Primary, what? Well, I’m sure that you have your personal account somewhere and your work or university account too. You can...continue reading.
JHSPH-Biostat through Coursera
Have you heard of online education? If you are in the US or Mexico I’m sure that you have seen some ads about online universities. Well, that’s not the type...continue reading.
Learning about social networks through an interactive presentation
During this week’s journal club meeting Hilary Parker (homepage, blog) led the session on “Identifying influential and susceptible members of social networks”. Were there some speakers or why did she “lead...continue reading.
Quid @Biostat-JHSPH
Just like most scientific departments, we have a seminar (weekly over here) where very bright people come to us to talk about their work. Being a Biostatistics department, we mostly...continue reading.
Set Package Repositories at Startup
The below code shows how to configure the repos option in R such that install.packages() etc. will locate the packages without having to explicitly specify the repository. Just add it...continue reading.
E-Learning to Machine Learn
machine learningA quick post about online educational resources on machine learning. Perhaps its a sign of increasing popularity of the field that there are now several courses on machine learning...continue reading.
Learning Kernels SVM
Machine Learning and Kernels A common application of machine learning (ML) is the learning and classification of a set of raw data features by a ML algorithm or technique. In...continue reading.
Introducing Git while making your academic webpage
Last week I gave a presentation during our computing club on how to use git (a version control system). I used as a motivating example the first steps of creating...continue reading.
