Explorations

 
 

November 5 2019

Tree-based Pipeline Optimization Tool (TPOT) is an automated machine learning tool that helps the data scientist find the optimal model pipeline for their prediction problem. Using genetic programming (GP), TPOT explores different pipelines (sequences of feature selectors, model classifiers, etc.) and recommends one with optimal cross-validated score after a specified number of generations. Here …

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October 31 2019

Last week, I got to attend a series of presentations followed by a panel discussion on open science at Penn Van Pelt-Dietrich library during the Open Access week. The panel featured (from left to right) Ted Satterthwaite, Jennifer Sisto, Daniel Himmelstein – all initiated enlightening discussions around different aspects of open science. ⊕ Photo credit: Rebecca Miller Jennifer Stiso …

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October 1 2019

I recently stumbled upon this article by Gervasio Piñeiroa and colleages analyzing the method of model evaluation via plotting observed and predicted \(y\). The authors argue that, in plotting predicted or observed values, observed should be place on the \(y\)-axis vs. predicted on the \(x\)-axis. Because this article is unfortunately behind paywall, I’m going to show the quick simulation I have …

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September 25 2019

Earlier this week, I attended the first Penn conference on big data in population health sciences. This was my first conference where I got to attend all the talks, and it was gratifying. The organizers did a wonderful job on selecting a great breadth of topics to cover, from electronic databases and biobanks to digital and mobile health. I learned so much! Some of these topics, according to my …

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September 20 2019

Penn Genetics recently held a wonderful retreat at Bear Creek Moutain resort. I enjoyed the many wonderful scientific talks at the retreat, but I was most moved by Arjun Raj’s call to action: blog. ⊕ At the retreat, Arjun also delivered a great talk on How to give a talk. I have always wanted to start a blog since graduate school when I read Daniel Lakens’ post on why blog posts may have …

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