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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!

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