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Hey thanks for caring about me for 2 seconds in this crazy world. 👋

  • 📫 How to reach me: here's a link to my various sites. https://bio.link/jimhavri
  • 🔭 I've worked on population-scale pathogenic variant and disease association models using rare and common variants combined with electronic health record information. Now I manage a whole data infrastructure and the analyses and products that come out of that structure.
  • 👯 I’m willing to collaborate on most things as long as I have some background in it, and it advances a field in some way.
  • 💬 Ask me about whatever, sports, mental health, code, genetics, etc.
  • 😄 Pronouns: he/him/his
  • ⚡ Fast facts: I am autistic. I have a PhD in Human Genetics and a BS/MS in Biomedical Engineering.

Jim Havrilla's Projects

ccr icon ccr

Building the constrained coding regions (CCR) model

ccrhtml icon ccrhtml

A small repo for storing the code for making the files and html for CCRs.

cyvcf2 icon cyvcf2

cython + htslib == fast VCF and BCF processing

docs icon docs

A repository for various how-to docs

hts-nim icon hts-nim

nim wrapper for htslib for parsing genomics data files

interlap icon interlap

fast, pure-python interval overlap testing

lollipops icon lollipops

Lollipop-style mutation diagrams for annotating genetic variations.

nf-test icon nf-test

A small tutorial repo for nextflow practice with the lab

pathoscore icon pathoscore

pathoscore evaluates variant pathogenicity tools and scores.

pmodel icon pmodel

For modeling genetic variation based on protein domains

prognotes icon prognotes

Tips and Tricks for Coding and Bioinformatics

sphinxdoc-test icon sphinxdoc-test

experimenting with the best way to push sphinx-generated docs to gh-pages

styles icon styles

Official repository for Citation Style Language (CSL) citation styles.

ukbdocker icon ukbdocker

Small repo for making ukbgene run on Mac/Windows

vcfanno icon vcfanno

annotate a VCF with other VCFs/BEDs/tabixed files

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