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8 followers · 16 following

Achievements

Achievement: Pair ExtraordinaireAchievement: QuickdrawAchievement: Pull Sharkx2Achievement: Arctic Code Vault Contributor

Achievements

Achievement: Pair ExtraordinaireAchievement: QuickdrawAchievement: Pull Sharkx2Achievement: Arctic Code Vault Contributor

Organizations

@maxsonBraunLab

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gartician/README.md

Hi there 👋

Hi, I'm Garth and welcome to this unique corner of the internet! I am a classically trained biochemist who joined the dark side computational side of biology. In my day-to-day position, I help life scientists understand the meaning of their sequencing data, and how that relates to their project's hypotheses. In the Maxson Lab where I currently work, I provide bioinformatic support to all lab members and write pipelines to analyze new sequencing datasets. I am always interested in the latest bioinformatic tools and trends, and I enjoy working with biologists at all levels of the computational spectrum.

When provided the chance, I develop/contribute to open-source bioinformatic software such as GoPeaks, CITEViz, MultiQC, and HINT-ATAC. Get to know me more by visiting my website and my twitter!

For potential employers

To get an example of my code, please check out my contributions to the maxsonBraunLab GitHub repository. My code has generated results that can be found in several publications and grants coming from the amazing Maxson and Braun Lab!

Technical Skills

Programming Languages 💻

Python R Shell Script Go

Proficient tools 🛠️

snakemake Anaconda Git snakemake

Bioinformatic Assays 🧬

DNA

CHIP

ATAC

CT

CR

RNA-Seq

scRNA-Seq

CITE-Seq

What I'm doing now

  • 🔭 I’m currently working on: profiling epigenetic changes in acute myeloid leukemia with the Maxson and Braun Labs at the Oregon Health and Science University
  • 🌱 I’m currently learning: Nextflow, docker, and package submission to conda forge
  • 💬 Ask me about: bioinformatics, epigenetic analyses, oncology, informational interviews
  • ⚡ Fun fact: black cats are very photogenic 🐈

My Programming Stats

Top Langs

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  1. maxsonBraunLab/atac_seq maxsonBraunLab/atac_seq Public

    process and analyze paired-end ATAC-Seq data

    R 3 1

  2. maxsonBraunLab/cutTag-pipeline maxsonBraunLab/cutTag-pipeline Public

    Pipeline for Cut&Tag analysis

    R 17 7

  3. summit summit Public

    Ultralight and fast implementation of GoPeaks to call peaks in CUT&Tag/CUT&RUN data

    Python 2

  4. synapse-upload synapse-upload Public

    Upload an entire directory to a Synapse project

    Python

  5. plate-demux plate-demux Public

    Demultiplex S3-ATAC-Seq reads in 96-well plates

    Python 1

  6. snakemake-teaching-example snakemake-teaching-example Public

    Python