Code Monkey home page Code Monkey logo

Hi! Nice to Meet You!

My name is David Angeles Albores (for science purposes, David Angeles-Albores), a computational biologist with expertise in ML/AI and anything genomics. I'm a Python lover, will program in R if you want me to, and my nightmares are haunted by my time in undergrad spent learning MatLab (shudder). I trained as a developmental and molecular biologist before transitioning into full-time computational work. Big fan of open-source code, documentation and fun projects. I like to play in teams. Mexican native, photography lover, and #teamwilpers Peloton fan.

More about me:

  • πŸ’œ Kind people are my people
  • πŸ’»πŸ‘¨β€πŸ”¬ Computational biology is awesome
  • ✨ Love learning
  • πŸ‹οΈ πŸ§—πŸš΄πŸŠ Weight-lifter, amateur climber, cyclist, and swimmer
  • πŸƒ Ha, just kidding. I do not run. At all. If a bear was chasing us, you would most likely survive.
  • 🦭 My spirit animal is the seal. Floppy on land, powerful in the sea... and probably would get eaten by an orca πŸ€”

What kind of work do I do?

I am principally interested in roles where I can bridge computation and biology. I live in the middle of these two fields. I love math, and have significant background in AI/ML, but you can definitely find better AI/ML specialists. I have a pretty deep knowledge of bioinformatics and genomics, with a specific focus on transcriptomics, but I am not the right person to build many of the tools I use daily (all hail Heng Li and Rob Patro and so many others in the open-source compbio community!). And I have an entire PhD's worth of experience with CRISPR, genetic crosses, PCRs, RNA library preps, hypoxia, you name it.

As a result, I tend to carve out a niche as a science translater in teams where you may already have two fantastic experts who really want to work with each other but who are struggling to collaborate because they do not speak the same scientific languages. Some of my past achievements as a science translater have included:

  • Development of a pig kidney that was transplanted into a patient with end-stage renal disease! Featured in the New York Times
  • Characterization of the effects that minute pheromone exposures have on egg-laying nematodes
  • Development of computational methods for the analysis of microbial RNA samples
  • Most recently, lots of work developing AI frameworks to carry out new experiments, and conceptual/computational frameworks to interpret the output results
  • Computational studies of the integrated stress response

In summary, I feel very lucky to have worked on many different species and many different types of problems across my career. I am a handy programmer, love to solve problems, and am a big believer that encouraging groups to communicate correctly potentiates results.

Some important websites for me:

David Angeles-Albores's Projects

2014 icon 2014

Official content for the Fall 2014 Harvard CS109 Data Science course

2014_data icon 2014_data

Data directory for the CS109 Data Science course

atacseq icon atacseq

ATAC-seq peak-calling, QC and differential analysis pipeline

cv icon cv

Tex Files for my CV

dictionary_generator icon dictionary_generator

A script to take a tissue ontology json file and turn it into a dataframe after filtering nodes that are below certain critera

fantasy-basketball icon fantasy-basketball

Scraping statistics, predicting NBA player performance with neural networks and boosting algorithms, and optimising lineups for Draft Kings with genetic algorithm. Capstone Project for Machine Learning Engineer Nanodegree by Udacity.

goatools icon goatools

Python scripts to find enrichment of GO terms

lahman icon lahman

Scripts to download and aggregate data from the Lahman’s Baseball Database

perl-support icon perl-support

Edit Perl scripts in Vim/gVim. Insert code snippets, run, check, and profile the code and look up help.

phinch icon phinch

Phinch is an open-source framework for visualizing biological data, funded by a grant from the Alfred P. Sloan foundation. This project represents an interdisciplinary collaboration between Pitch Interactive, a data visualization studio in Berkeley, CA, and biological researchers at UC Davis.

single-cell-tutorial icon single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

sleuth icon sleuth

Inspect kallisto RNA-Seq output

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    πŸ–– Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. πŸ“ŠπŸ“ˆπŸŽ‰

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❀️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.