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addddisonnnn/README.md

Greetings, I'm Addison!

M.Sc. Bioinformatics Student | Computational Genomics Researcher

I am a Master's student specializing in Bioinformatics with a strong background in large-scale data processing, reproducible pipelines, and computational genomics. My work focuses on leveraging High-Performance Computing (HPC) environments and machine learning to tackle complex biological problems, including de novo genome assembly and regulatory element prediction.

Key Expertise & Toolkit

I work with data processing, reproducible workflows, and advanced computational models.

Programming & Data Science: Python R C++ Java Bash Git

Reproducibility & HPC: Nextflow Snakemake Docker Singularity SLURM/HPC

Core Bioinformatics Tools:

  • Genomic Processing: BWA, samtools, bedtools, FastQC
  • Assembly: Hifiasm, Flye (Long-Read Assembly)
  • Specialized: AlphaFold (Structure), SCRMshaw (Enhancer Prediction)

Connect With Me

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  1. Validating-Chronic-Inflammation-Biomarkers-via-Integrated-Bioinformatics-ML Validating-Chronic-Inflammation-Biomarkers-via-Integrated-Bioinformatics-ML Public

    Documenting my progress towards recreating a paper revolving around identifying biomarkers contributing towards chronic inflammatory diseases through integrated bioinformatics and machine learning …

    R 1

  2. KLF4-Yamanaka-Pioneer-Factor-Project KLF4-Yamanaka-Pioneer-Factor-Project Public

    Documenting my progress towards discovering relevant determinants and better understanding the mechanisms and limitations of KLF4 pioneer factor ability as well as establishing familiarity with the…

    Shell 1

  3. ChIPseq-Analysis-Pipeline ChIPseq-Analysis-Pipeline Public

    Analysis of ChIPseq samples of RUNX1 Binding in MCF-7 Cells

    Python 1

  4. PB-J-Society/About-the-PB-J-Society PB-J-Society/About-the-PB-J-Society Public

    The core infrastructure and documentation about how the PB&J Society operates and is structured

    1

  5. TLS-Detection-in-Tumor-Spatial-Transcriptomics TLS-Detection-in-Tumor-Spatial-Transcriptomics Public

    Utilize single cell data to characterize tertiary lymphoid structures in kidney and lung tumors.

    Jupyter Notebook

  6. ATACseq-and-Differential-Chromatin-Accessibility-Analysis-Pipeline ATACseq-and-Differential-Chromatin-Accessibility-Analysis-Pipeline Public

    Implementing a bioinformatics pipeline and an analysis on a publication focused on chromatin accessiblity as assayed by ATACseq.

    Nextflow