189 search results for "heatmap"

Using genomation to analyze methylation profiles from Roadmap epigenomics and ENCODE

March 31, 2015
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Using genomation to analyze methylation profiles from Roadmap epigenomics and ENCODE

The genomation package is a toolkit for annotation and visualization of various genomic data. The package is currently in developmental version of BioC. It allows to analyze high-throughput data, including bisulfite sequencing data. Here, we will visualize the distribution of CpG methylation around promoters and their locations within gene structures on human chromosome 3.Heatmap and...

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Another Interactive Map for the Cholera Dataset

March 31, 2015
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Another Interactive Map for the Cholera Dataset

Following my previous post, François (aka @FrancoisKeck) posted a comment mentionning another package I could use to get an interactive map, the rleafmap package. And the heatmap was here easy to include. This time, we do not use openstreetmap. The first part is still the same, to get the data, > require(rleafmap) > library(sp) > library(rgdal) > library(maptools) >...

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Interactive Maps for John Snow’s Cholera Data

March 28, 2015
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Interactive Maps for John Snow’s Cholera Data

This week, in Istanbul, for the second training on data science, we’ve been discussing classification and regression models, but also visualisation. Including maps. And we did have a brief introduction to the  leaflet package, devtools::install_github("rstudio/leaflet") require(leaflet) To see what can be done with that package, we will use one more time the John Snow’s cholera dataset, discussed in previous...

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Color extraction with R

March 4, 2015
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Color extraction with R

Given all the attention the internet has given to the colors of this dress, I thought it would be interesting to look at the capabilities for extracting colors in R. R has a number of packages for importing images in various file formats, including PNG, JPG, TIFF, and BMP. (The readbitmap package works with all of these.) In each...

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Eight New Ideas From Data Visualization Experts

February 12, 2015
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Eight New Ideas From Data Visualization Experts

This post summarizes and visualizes eight key ideas we’ve heard from data visualization experts. Check out our first Case Study to learn more about using Plotly Enterprise on-premise, on your servers. To get started on free online graphing like in this post, check out our tutorials. Make Interactive Graphs Pictures of graphs in PowerPoints, dashboards, and emails can...

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Some Applications of Item Response Theory in R

January 11, 2015
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Some Applications of Item Response Theory in R

The typical introduction to item response theory (IRT) positions the technique as a form of curve fitting. We believe that a latent continuous variable is responsible for the observed dichotomous or polytomous responses to a set of items (e.g., multipl...

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Top 77 R posts for 2014 (+R jobs)

January 7, 2015
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Top 77 R posts for 2014 (+R jobs)

R-bloggers.com is 5 years old this month! In celebration, this post share links to the top 77 most read R posts of 2014 (+stats on R-bloggers, + top R jobs for the beginning of 2015)

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Mapping IPv4 Address (with Hilbert curves) in R

January 2, 2015
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Mapping IPv4 Address (with Hilbert curves) in R

While there’s an unholy affinity in the infosec commuinty with slapping IPv4 addresses onto a world map, that isn’t the only way to spatially visualize IP addresses. A better approach (when tabluation with bar charts, tables or other standard visualization techniques won’t do) is to map IPv4 addresses into Hilbert space-filling curve. You can get a good feel...

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Contextual Measurement Is a Game Changer

December 22, 2014
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Contextual Measurement Is a Game Changer

Adding a context can change one's frame of reference:Are you courteous? Are you courteous at work? Decontextualized questions tend to activate a self-presentation strategy and retrieve memories of past positioning of oneself (impression manag...

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A New Volatility Strategy, And A Heuristic For Analyzing Robustness

December 4, 2014
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A New Volatility Strategy, And A Heuristic For Analyzing Robustness

This post is motivated by a discussion that arose when I tested a strategy by Frank of Trading The Odds … Continue reading →

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