Blog Archives

And so begins English Composition I

March 21, 2013
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And so begins English Composition I

This week started the English Composition I: Achieving Expertise course (Comer, 2013) that I have been looking forward to. I am not sure yet how long I will last, but I hope to enjoy it as much as I can. Plus, it should help me with my...

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FBit: GitHub repo for posts with R code for this blog

March 11, 2013
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FBit: GitHub repo for posts with R code for this blog

This is a test post since I want to improve upon Jeffrey Horner’s strategy for posting R code in Tumblr. The only minor improvement I wanted to try out is hosting the images directly on the web. I mean, right now the images won’t show in RSS readers. I’m not doing anything new at all, just using the...

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Analyzing SimplyStatistics visits info

March 9, 2013
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Analyzing SimplyStatistics visits info

Recently we had to analyze the data of the number of visits per day to SimplyStatistics.org. There were two goals: Estimate the fraction of visitors retained after a spike in the number of visitors Identify (if any) any factors that influence the fraction estimated in 1. For me it was a fun project in part because I like SimplyStatistics but also...

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Sharing my work for “Advanced Methods III”

February 13, 2013
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Sharing my work for “Advanced Methods III”

This semester I’m taking the live version of the Data Analysis class by Jeff Leek. His more popular version of the course is available through Coursera.  One of the things that Jeff promotes is reproducibility and sharing code. I share that tendency and thus created a Git repository for my homework and code for the class: lcollado753. I’m...

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Introduction to R and Biostatistics (2012 version): presentation

November 12, 2012
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Introduction to R and Biostatistics (2012 version): presentation

To follow my Introducing R and Biostatistics to first year LCG students (2012 version) post,  you can now find the presentation online from my site either in presentation format, in a single webpage format, or the raw Rmd file. To prove the point that publishing to RPubs is super easy, you can also find the single...

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Introducing R and Biostatistics to first year LCG students (2012 version)

October 30, 2012
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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 Bioinformatics” course. It’s just like I did a year ago as I documented in my post Introducing Biostatistics to first year LCG students. Well, this time I’ll change things...

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Visualizing colors()

October 19, 2012
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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 plot to visualize them all. Here’s the code: mat <- matrix(1:length(colors()), ncol = 9, byrow= TRUE) df <- data.frame(col = colors(), ...

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The new visualization package for genome data in Bioconductor: ggbio

December 6, 2011
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The new visualization package for genome data in Bioconductor: ggbio

It’s been a while since I’ve been waiting for the release of a visualization package in Bioconductor. Back in 2008 I was really impressed by the power of GenomeGraphs and I have used it in multiple occasions. Yet from both the Bioconductor Developer Meeting in Heidelberg 2010 and BioC2011 I’ve been waiting for the release of...

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Introducing Biostatistics to first year LCG students

December 4, 2011
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Introducing Biostatistics to first year LCG students

Around two weeks ago I gave a talk via skype to the first year students from the Undergraduate Program on Genomic Sciences (LCG in Spanish) from the National Autonomous University of Mexico (UNAM in Spanish). The talk was under the context of the Introduction to Bioinformatics Seminar Series whose goal is to familiarize the new students with the bioinformatics...

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