# Category List

# Blog Post by Category

## Bayes (1)

### Introduction to Empirical Bayes June 21, 2018

A few months ago, I stumbled on to the wonderful book ‘Introduction to Empirical Bayes’ written by David Robinson. I really, really enjoyed the book (I had r...

## ML (3)

### A toy Neural Network and an introduction to Tensorflow May 21, 2022

I’m currently exploring ChatGPT and while I’m doing this, I am revisiting common ML concepts, and exploring libraries like the tensorflow library.

### Building your own neural network May 20, 2022

So what’s the big deal with AI?

### Hyperparameter tuning and ChatGPT's first failure mode! May 22, 2022

In the previous post, we used ChatGPT to build a toy neural network model that classifies diagnostic aspirates into ‘Malignant’ or ‘Benign’ diagnoses. That t...

## R (1)

### Introduction to Empirical Bayes June 21, 2018

A few months ago, I stumbled on to the wonderful book ‘Introduction to Empirical Bayes’ written by David Robinson. I really, really enjoyed the book (I had r...

## adventure (5)

### First ever Snowhike! January 15, 2021

I completed my first-ever snowhike on December 20th, 2020 with my friend Katya Moniz. She gave me a pair of (enormous) snow-shoes I could use, and we hiked u...

### Guanajuato, Ciudad de las Ranas August 8, 2016

One week after we visited Ensenada, Heather and I flew to Guanajuato to teach our second development course. There, we met up with Alejandro Sanchez-Alvarado...

### Joshua Tree Adventure! February 14, 2015

Joshua Tree, 2015

### Trip to Chiapas March 31, 2015

Heather and I took a short trip to Chiapas that was truly magical. Chiapas is a beautiful state in southern Mexico. Along with Oaxaca, it has the largest Nat...

### Yosemite Backcountry Camping June 6, 2016

On June 3rd to the 6th, Heather, Manuel, Charlotte and I headed to Yosemite National Park to do some backcountry camping. Yosemite is a beautiful National Pa...

## biophysics (1)

### How much COVID is there, exactly? January 4, 2021

SARS-Cov2 by the numbers

## clustering (2)

### Non-negative matrix factorization March 23, 2018

I wrote a short tutorial on NMF. Initially, I was skeptical about NMF, but I ended up learning a lot about it, and I discovered that the implementation makes...

### t-SNE is a plotting, not a clustering, algorithm March 21, 2018

Table of Contents SNE t-SNE Drawbacks Code

## epidemiology (6)

### Back of the envelope calculation of R_0 for the SARS-Cov-2 Delta strain November 18, 2021

A few months ago, the Delta strain made its conspicuous landing in the US. This strain is more contagious than the original SARS-Cov-2, but by how much?

### COVID-19 April 12, 2020

I really did not expect 2020 to go this way. I thought it would be quite different. Maybe you’ve been living under a rock, so I should catch you up briefly o...

### COVID-19 Daily Updates April 13, 2020

Here’s a rolling analysis that I will keep up-to-date and refreshed throughout the academic. The analysis relies on data from the NYT to track the pandemic t...

### Happy New Year! How effective does a vaccine have to be to eliminate SARS-Cov2 from the planet? January 2, 2021

The Moderna, Pfizer and Astrazeneca vaccines are out! What an exciting way to start 2021. Everyone wants them, but the question I have been pondering the fir...

### What does it mean to socially distance November 16, 2020

I am SO tired of socially distancing. I want to hang out with 1 or 2 different people every day. That’s not a lot, right?! I am being reasonable if I do that...

### What does it mean to socially distance PART 2 November 23, 2020

One of the things that bothered me about the previous post was that it did not address the enormous heterogeneity that has characterized this pandemic. So, i...

## life (1)

### On Kindness November 24, 2019

On September 12, 2019, I lost everything. In the aftermath of a brutal assault, I found myself alone, with no money, severely injured in a strange city. The ...

## outreach (2)

### Clubes de Ciencia MX, Ensenada Version, 2017 July 31, 2016

In July, Heather and I headed down to Ensenada to teach a Clubes workshop. Originally I wasn’t supposed to go with her, but her co-instructor cancelled at th...

### Guanajuato, Ciudad de las Ranas August 8, 2016

One week after we visited Ensenada, Heather and I flew to Guanajuato to teach our second development course. There, we met up with Alejandro Sanchez-Alvarado...

## pandemic (7)

### Back of the envelope calculation of R_0 for the SARS-Cov-2 Delta strain November 18, 2021

A few months ago, the Delta strain made its conspicuous landing in the US. This strain is more contagious than the original SARS-Cov-2, but by how much?

### COVID-19 April 12, 2020

I really did not expect 2020 to go this way. I thought it would be quite different. Maybe you’ve been living under a rock, so I should catch you up briefly o...

### COVID-19 Daily Updates April 13, 2020

Here’s a rolling analysis that I will keep up-to-date and refreshed throughout the academic. The analysis relies on data from the NYT to track the pandemic t...

### Happy New Year! How effective does a vaccine have to be to eliminate SARS-Cov2 from the planet? January 2, 2021

The Moderna, Pfizer and Astrazeneca vaccines are out! What an exciting way to start 2021. Everyone wants them, but the question I have been pondering the fir...

### How much COVID is there, exactly? January 4, 2021

SARS-Cov2 by the numbers

### What does it mean to socially distance November 16, 2020

I am SO tired of socially distancing. I want to hang out with 1 or 2 different people every day. That’s not a lot, right?! I am being reasonable if I do that...

### What does it mean to socially distance PART 2 November 23, 2020

One of the things that bothered me about the previous post was that it did not address the enormous heterogeneity that has characterized this pandemic. So, i...

## personal (1)

### On Kindness November 24, 2019

On September 12, 2019, I lost everything. In the aftermath of a brutal assault, I found myself alone, with no money, severely injured in a strange city. The ...

## programming (3)

### Introduction to Empirical Bayes June 21, 2018

A few months ago, I stumbled on to the wonderful book ‘Introduction to Empirical Bayes’ written by David Robinson. I really, really enjoyed the book (I had r...

### Non-negative matrix factorization March 23, 2018

I wrote a short tutorial on NMF. Initially, I was skeptical about NMF, but I ended up learning a lot about it, and I discovered that the implementation makes...

### t-SNE is a plotting, not a clustering, algorithm March 21, 2018

Table of Contents SNE t-SNE Drawbacks Code

## science (4)

### Back of the envelope calculation of R_0 for the SARS-Cov-2 Delta strain November 18, 2021

A few months ago, the Delta strain made its conspicuous landing in the US. This strain is more contagious than the original SARS-Cov-2, but by how much?

### Introduction to Empirical Bayes June 21, 2018

### Non-negative matrix factorization March 23, 2018

I wrote a short tutorial on NMF. Initially, I was skeptical about NMF, but I ended up learning a lot about it, and I discovered that the implementation makes...

### t-SNE is a plotting, not a clustering, algorithm March 21, 2018

Table of Contents SNE t-SNE Drawbacks Code