223 search results for "heatmap"

Maungawhau with a Gaussian process

October 22, 2015
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Maungawhau with a Gaussian process

The Maungawhau volcano dataset is an R classic, often used to illustrate 3d plotting. Being on a Gaussian process kick lately, it seemed fun to try to interpolate the volcano elevation data using a subset of the full dataset as training data. Even with...

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New features in genomation package

October 15, 2015
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New features in genomation package

Extending genomation to work with paired-end BAM filesExtending genomation to work with paired-end BAM filesAccelerate functions responsible for reading genomic filesParallelizing data processing in ScoreMatrixListArithmetic, indicator and logic operations as well as subsetting work on ScoreMatrix objectsImprovements and new arguments in visualization functionsFaster...

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Simulating backgammon players’ Elo ratings

August 6, 2015
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Simulating backgammon players’ Elo ratings

Probabilities of winning with a given rating Backgammon clubs and on-line forums use a modified form of the Elo rating system to keep track of how well individuals have played and draw inferences about their underlying strength. The higher the rating, the stronger the player. Players with higher ratings are inferred to be stronger than those with...

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dendextend: a package for visualizing, adjusting, and comparing dendrograms (based on a paper from “bioinformatics”)

August 4, 2015
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dendextend: a package for visualizing, adjusting, and comparing dendrograms (based on a paper from “bioinformatics”)

This post on the dendextend package is based on my recent paper from the journal bioinformatics (a link to a stable DOI). The paper was published just last week, and since it is released as CC-BY, I am permitted (and delighted) to republish it here in full: abstract Summary: dendextend is an R package for creating and comparing visually appealing … Continue reading...

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A Dashboard Implementation Of Clustering App

July 28, 2015
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A Dashboard Implementation Of Clustering App

Background I previously built an interactive, online App using Shiny where you can upload your own data, perform basic clustering analysis, and view correlations in a heatmap. I wrote about this in my last post. While this worked, it was very ugly and needed a face lift. With the help of a friend, I implemented a dashboard...

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Seeing Data as the Product of Underlying Structural Forms

July 15, 2015
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Seeing Data as the Product of Underlying Structural Forms

Matrix factorization follows from the realization that nothing forces us to accept the data as given. We start with objects placed in rows and record observations on those objects arrayed along the top in columns. Neither the objects nor the measuremen...

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dendextend version 1.0.1 + useR!2015 presentation

June 28, 2015
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dendextend version 1.0.1 + useR!2015 presentation

My R package dendextend (version 1.0.1) is now on CRAN! The dendextend package Offers a set of functions for extending dendrogram objects in R, letting you visualize and compare trees of hierarchical clusterings. With it you can (1) Adjust a tree’s graphical parameters – the color, size, type, etc of its branches, nodes and labels. … Continue reading...

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Visualization and Analysis of Reddit’s "The Button" Data

June 15, 2015
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Visualization and Analysis of Reddit’s "The Button" Data

IntroductionPeople are weird. And if there's anything that's greater collective proof of this fact than Reddit, you'd be hard pressed to find it.I tend to put reddit in the same bucket as companies like Google, Amazon and Netflix, where they have enoug...

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Any R code as a cloud service: R demonstration at BUILD

June 5, 2015
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Any R code as a cloud service: R demonstration at BUILD

At last month's BUILD conference for Microsoft developers in San Francisco, R was front-and-center on the keynote stage. In the keynote, Microsoft CVP Joseph Sirosh introduced the "language of data": open source R. Sirosh encouraged the audience to learn R, saying "if there is a single language that you choose to learn today .. let it be R". The...

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A Shiny App To Interactively Cluster Your Data

May 15, 2015
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UPDATE Since writing this post I’ve re-implemented the app as a dashboard. View the dashboard version, source code, and new blog post. Brief Summary I built an interactive, online App using Shiny where you can upload your own data (for an example, download mtcars) and perform basic clustering analysis and view correlations in a heatmap. View...

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