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followers: 60.0 following: 26.0 repos: 18.0 gists: 5.0

Name: Sean Hackett

Type: User

Company: Calico: @calico

Bio: I am the Director of Discovery Data science at @calico where my team turns key outputs of basic research (mechanisms and targets) into data science problems.

Location: South San Francisco

Blog: shackett.org

My professional projects at Calico are primarily in private repos which I hope to open-source in the future. The projects largely fit into two buckets:
- Development of a robust ecosystem for working with mass spectrometry data combining a configurable Dockerized pipeline and R packages supporting the pipeline and downstream analysis.
- Approaches using genome-scale systems biology to understand regulation. See Induction Dynamics Expression Atlas and Impulse.
My side-projects and past work can be found on my personal website. Here is a brief rundown.
- 💡 🏥 Past research
- Fight Prior

Sean Hackett's Projects

aggregator

Combining peptides to predict the relative abundance of proteins

cancerio

Integrative omics using primary tumors

crispr-caller

A method for confirming CRISPR knockouts of genes from sanger sequencing data

dplyr

dplyr: A grammar of data manipulation

drosophila_metabolism

FBA analysis of drosophila metabolism using Vmax and gas-exchange constraints

fluxr

Streamlining analysis of metabolism

impulse

Fit phenomenological sigmoid and impulse curves with priors to improve interpretability

isopeak

Improved compound identification by simultaneously searching for multiple chemical adducts

midas

mqtl

Testing how genetic variation in a cross between two parental yeast strains impacts the metabolome

pancreatic_tumor_metabolomics

Scripts used to compare metabolite concentrations between paired tumor-benign human pancreatic cancer samples.

shackett

Smaller projects which are either being turned into blog posts, in early development, or are mothballed

shackett.github.io

My personal website / blog

shackettmisc

Assorted functions for plotting (ggplot2 themes) and data manipulation

simmer

Systematic Identification of Meaningful Metabolic Enzyme Regulation

simplystats.github.io

Simply Statistics on Github

thesis

yeast_metabolism

Integrating metabolomics, proteomics and flux inference to predict metabolic regulation and control

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