I’m currently developing a single-cell RNA Sequencing pipeline for NetworkAnalyst; an open source, web-based platform for comprehensive gene expression profiling & meta-analysis. The website uses mostly R code (via {RServe}???? ), Java for the he...

Identifying regional differences of Perinatal Mental Health indicators in the UK with R The fingertipsR package provides an easy interface to access the fingertips API. This repository contains a large variety of public health indicators managed by Public Health England. I will be focusing on the data related to Perinatal ...

Photo by Pankaj Patel on UnsplashAfter reading the O’Reilly book “Foundations for Architecting Data Solutions”, by Ted Malaska and Jonathan Seidman, I reflected on how I chose software/tools/solutions in the past and how I should choose them going forward. As a bioinformatician you need to be able ...

Photo by freestocks.org on UnsplashI love to learn new things and one of ways I learn best is by doing. Also it’s been said that you never fully understand a topic until you are able to explain it , I think blogging is a low barrier to explaining things. ...

Photo by Pakata Goh on UnsplashClustering is one of the most common unsupervised machine learning problems. Similarity between observations is defined using some inter-observation distance measures or correlation-based distance measures. There are 5 classes of clustering methods: + Hierarchical Clustering+ Partitioning Methods (k-means, PAM, CLARA)+ Density-Based Clustering+ Model-based Clustering+ Fuzzy Clustering My ...

Great post Yash! For those readers interested in getting data from the fitbit API using R I’ve documented the process here: https://towardsdatascience.com/the-gamification-of-fitbit-how-an-api-provided-the-next-level-of-training-eaf7b267af00

“Anyone can look for fashion in a boutique or history in a museum. The creative explorer looks for history in a hardware store and fashion in an airport” — Robert Wieder As much as I like Medium for it’s ability to reach an audience I prefer the customization afforded by ...

Recently, I was reading Howard et. al., (2018) “Genome-wide meta-analysis of depression in 807,553 individuals identifies 102 independent variants with replication in a further 1,507,153 individuals” and saw a really cool 3D visualization of highlighted brain regions associated with depression: Source: https://goo.gl/7rY5KVAfter an exhaustive search I couldn’t find any ...

The “Gold Standard” for Data Science Project ManagementThe inspiration for this post came most recently from a slide-deck by Ming Tang, a Bioinformatician at Harvard, and a new Chromebook Data Science course offered by Jeffery Leek from John Hopkin...

Great post!I wanted to mention that although many previous studies have used the area under receiver operating characteristic curve (auROC) statistic to benchmark the precision, it misleads evaluators when the test data is (highly) imbalanced see: PLOS...

Hi Pawel, I’m glad you enjoyed it. I was trying to play around with facet_grid() earlier but I guess I didn’t stumble upon the proper parameters. Your suggestion works perfectly; not only does it keep each grid x-axis width proportional to its length, but it also keeps ...

Welcome to the last part of the series where I recreate data visualizations in R from the book Knowledge is Beautiful by David McCandless.Links to part I, II, III of the series can be found here.Plane CrashesThis dataset will be used for a couple of visualizations.The first ...

Welcome to the third installment of the series where I recreate data visualizations, in R, from the book Knowledge is Beautiful by David McCandless.Here are the links for part I and part II of the series if you haven’t checked them out yet.The list of frustrations in ...

In part II of this series I continue to recreate some of the visualizations from the book “Knowledge is Beautiful” by David McCandless in R.David McCandless is author of two bestselling infographics books and gives a great TED talk about data visualization. His second book Knowledge is Beautiful , published ...

I love the idea of a permanent side-bar for the TOC. Can’t wait until you provide the open-source code. Can you share any resources for those interested in learning CSS rules and hacks to customize their blogs and reports?

n this series of posts I will set out to recreate some of the visualizations from the book “Knowledge is Beautiful” by David McCandless in R.David McCandless is author of two bestselling infographics books and gave a TED talk about data visualization. I bought his second book “Knowledge is ...

The Freeride World Tour (FWT) has been hosting extreme skiing & snowboarding events since 1996. Having just wrapped up the 2018 season in March I did an analysis on rankings and past FWT winners using R.If you haven’t heard of the FWT yet it’s an exciting sport where riders choose ...

Taking the advice of David Robinson I’ve decided to start a blog and write about data science, not only to create a portfolio of my work, but as a repository I can check back on when I scratch my head and think “now how did I do that?” A ...