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kbfeldmann/README.md

Hello World

I build bioinformatics pipelines to analyze high-dimensional biological datasets and examine novel computational biology software tools. From using whole-genome sequences for studying patterns of introgression to benchmarking an autoencoder using a single-cell multimodal dataset, I have used computational approaches to explore a breadth of biological fields.

Want to learn more about my bioinformatics experience? Click on an emoji to discover one of my projects!

Benchmarking 🔍
Cancer Genomics ✂️
Dimensionality Reduction 🔍 📷
Evolutionary Biology 🌐 🐥 📷
Image Analysis 📷
Long-read Sequencing ✂️
Machine Learning 🔍
Phylogenetics 🌐
Population Genomics 🐥
Short-read Sequencing ✂️ 🐥
Single-cell Multiomics 🔍
Single-nucleotide Variants 🌐 🐥
Structural Variants ✂️
Whole-Genome Sequencing ✂️ 🌐 🐥

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  1. benchmark-autoencoder benchmark-autoencoder Public

    Machine learning algorithms have been developed to computationally pair single-cell modalities, because experimentally generating multi-modal data sets is limited by complexity and cost. The goal o…

    Jupyter Notebook

  2. cancer-structural-variants cancer-structural-variants Public

    Prostate cancer genomes are unstable and prone to chromothripsis events and characterizing structural variants is important for understanding malignancy. The goal of this project was to identify st…

    Shell

  3. SARS2-mut-fitness SARS2-mut-fitness Public

    Forked from jbloomlab/SARS2-mut-fitness

    The goal of this project was to develop a computational pipeline to identify mutations that are significantly enriched between SARS-CoV-2 phylogenetic clades. I conducted contingency table analyses…

    HTML

  4. whole-genome-introgression whole-genome-introgression Public

    Black-capped and Carolina chickadees hybridize in the eastern United States, and hybrid chickadees have deficient learning and memory abilities. The goal of this project was to determine if cogniti…

    R 3

  5. plumage-photography plumage-photography Public

    In birds, phenotype is critical for maintaining species barriers, where differences in plumage regulate reproductive transactions within and between species. To explore the role of plumage on inter…

    R