159 search results for "heatmap"

Community Detection in Networks with R

Community Detection in Networks with R

I mainly post this visualization because I think it’s pretty. It reminds a little of the work by the famous Dutch painter Mondrian. The complete matrix can be found here. The plot is a heatmap of an adjacency matrix generated by a weighted dir...

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In case you missed it: June 2012 Roundup

July 11, 2012
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In case you missed them, here are some articles from June of particular interest to R users. The FDA goes on the record that it's OK to use R for drug trials. A review of talks at the useR! 2012 conference. Using the negative binomial distribution to convert monthly fecundity into the chances of having a baby in a...

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Color Palettes in RGB Space

June 20, 2012
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Color Palettes in RGB Space

Introduction I've recently been interested in how to communicate information using color. I don't know much about the field of Color Theory, but it's an interesting topic to me. The selection of color palettes, in particular, has been a topic I've been faced with lately. I downloaded 18 different sequential color palettes from Cynthia Brewer's

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More on birthday probabilities

June 15, 2012
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More on birthday probabilities

Last week, Joe Rickert used R and four years of US Census data to create an image plot of the relative probabilities of being born on a given day of the year: Chris Mulligan also tackled this problem with R, but this time using 20 years of Census data from 1969 to 1988. Chris extracted the birthday frequencies using...

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Pretty Correlation Map of PIMCO Funds

June 14, 2012
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Pretty Correlation Map of PIMCO Funds

As PIMCO expands beyond fixed income, I thought it might be helpful to look at correlation of PIMCO mutual funds to the S&P 500.  Unfortunately due to the large number of funds, I cannot use the chart.Correlation from PerformanceAnalytics.&nbs...

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Simulating the Birthday Problem with data derived probabilities

June 6, 2012
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Simulating the Birthday Problem with data derived probabilities

You've probably heard of the Birthday Paradox: it only takes a small gathering of people before it's quite likely that two of them share the same birthday. You can solve the problem analytically or with simulation, but usually in either case simplifying assumptions are made (no-one born on February 29, for example). Joe Rickert uses Revolution R Enterprise 6...

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Another look at over-representation analysis interpretation

May 21, 2012
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Another look at over-representation analysis interpretation

Interpreting a list of differentially regulated genes can take many forms. One of the most widely used method is looking for enrichment of functional group of genes compared to a random sampling of gene from the same universe, namely an over-representation analysis (ORA).The point I want to explore today is what is the best way to interpret the results...

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More Bixi Data Visualization

May 17, 2012
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More Bixi Data Visualization

I mentioned in a previous post that our team at the recent Hack/Reduce hackathon had some fun with a data set which consisted of Bixi station states at minute level temporal resolution. In addition to pulling out and plotting the flux at each station on an hourly basis, we also plotted the system state (number

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Clustering analysis and its implementation in R

April 29, 2012
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Earlier I posted a blog for "k-means + heatmap" used for clustering analysis. Recently to prepare for the "Bioinformatics Tools" meeting, I made a slide with more details on "clustering analysis". Here it is:https://docs.google.com/presentation/d/1vMS3...

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Heat map visualization of sick day trends in Finland with R, ggplot2 and Google Correlate

April 24, 2012
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Heat map visualization of sick day trends in Finland with R, ggplot2 and Google Correlate

Inspired by Margintale’s post “ggplot2 Time Series Heatmaps” and Google Flu Trends I decided to use a heat map to visualize sick days logged by HeiaHeia.com Finnish users. I got the data from our database, filtering results by country (Finnish users only) in a tab separated form with the first line as the header. Three columns

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