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Achievement: YOLOAchievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Sharkx2

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btmartin721/README.md

Hi there! Waving Hand
I'm Bradley T. Martin, PhD

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About Me

I am a computational biologist and genomic data science focusing on evolutionary biology and population genomics. My research specifically targets genomic SNP datasets from non-model organisms. My work bridges the gap between biological research and software engineering. I develop AI software to analyze both short-read and long-read genomic data.

Active Projects

🧬 SNPio

An all-in-one file I/O and population genomic analytical API designed for robust data manipulation.

🧠 PG-SUI

A computational tool utilizing deep learning to impute missing data in population genomic SNP datasets.

Current Directions

  • AI methods for population genomic SNP imputation
  • Scientific Python tooling for genomics workflows
  • HPC-enabled analysis pipelines
  • Long-read and short-read genomic data integration
  • Reproducible computational biology

Technical Toolbox

Languages & Scripting
Python R C++ Java Bash/ZSH


Machine Learning, HPC & Infrastructure
PyTorch Docker AWS SLURM HPC


🐍 My GitHub Contributions

GitHub Contribution Grid Snake Animation

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  1. ClineHelpR ClineHelpR Public

    Detects Outliers and plots genomic clines from BGC output, and extends the plotting functionality of INTROGRESS to Correlate genomic clines and hybrid indices with Environmental Variables

    R 16 2

  2. mecr_boxturtle mecr_boxturtle Public

    Collection of scripts for doing and plotting machine learning species delimitation results

    R 1

  3. makePopMap makePopMap Public

    Python script to add population identifiers to STRUCTURE, PLINK, and PHYLIP files

    Python 1

  4. file_converters file_converters Public

    File conversion scripts for DNA sequence data

    Python 3 2

  5. R_scripts R_scripts Public

    Scripts written in R

    R 1 1

  6. raxml_ascbias raxml_ascbias Public

    Script for removing or counting invariant sites for the RAxML ascertainment bias corrections

    Python 16 3