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rbpatt2019/README.md

OrcID

Ryan B Patterson-Cross is currently a Senior Bioinformatician (Operations) at Genomics England where he ensures smooth data flow through the analysis pipeline by leading process improvement and troubleshooting the need of both internal and external stakeholders. As part of this role, he represents the team in ISO audits, manages a junior team member, and leads development of new, cloud-native monitoring systems. Previously, he worked at the Bio2Core, Wellcome-MRC Institute of Metabolic Science, Cambridge, where he developed a command line interface for analysing lipidomics data as well as several snakemake pipeline for sc-RNAseq analysis, including a package to query GTEx data in tissues. He moved to Cambridge after working as a research fellow in Ariel Levine's group at the National Institutes of Health, USA. There, he developed a framework in R for quantitative selection of clustering hyperparameters and collaborated on a ML pipeline to identify cell types in a harmonised, sc-RNAseq atlas.

Ryan holds an MSc(Res) in Medical Science from the University of Oxford, where he studied mitochondrial turnover in Parkinson's disease. During these studies, he took several courses in data science through the FAES at the National Institutes of Health in Bethesda. He also holds a BSc in Neuroscience and a BSc in Molecular/Cellular Biology with a minor in Spanish from Johns Hopkins University.

Outside of work, Ryan is an avid crafter with a penchant for crochet. When he's not walking his dog or playing with his son, he enjoys Rubik's cubes, playing octave mandolin, and constantly tinkers with his Vim/NeoVim settings.

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  1. IMS-Bio2Core-Facility/lta IMS-Bio2Core-Facility/lta Public

    A Python command line interface for analysing lipidomics data

    Python 1 1

  2. IMS-Bio2Core-Facility/GTExQuery IMS-Bio2Core-Facility/GTExQuery Public

    Multithreading, data handling, and file manipulation for the GTExSnake pipeline

    Python 1 1

  3. IMS-Bio2Core-Facility/GTExSnake IMS-Bio2Core-Facility/GTExSnake Public

    A fully concurrent pipeline for querying transcript-level GTEx data in specific tissues

    Python 3 1

  4. chooseR chooseR Public

    An R framework for choosing clustering parameters in scRNA-seq analysis pipelines

    R 32 9

  5. nix-dotfiles nix-dotfiles Public

    Here be dragons, at least partially tamed by nix and home-manager

    Nix 1

  6. dotfile-docs dotfile-docs Public

    Because how else am I supposed to remember all of this!

    Nix 1