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Software gardening...
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Software gardening...
87 followers · 235 following

Achievements

Achievement: Pull Sharkx4Achievement: StarstruckAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: Quickdraw

Achievements

Achievement: Pull Sharkx4Achievement: StarstruckAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: Quickdraw

Organizations

@conda-forge @cytomining @sphinx-contrib @nf-core @University-of-Colorado-Anschutz-Denver @UCBoulder @CU-DBMI @WayScience @software-gardening @xqlsystems

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d33bs/README.md

Hi, I'm Dave 👋

I'm a research software engineer building open-source tools for scientific discovery, with a focus on bioimaging, single-cell analysis, and sustainable software practices.

I've been on Github for 13 years. During that time I've contributed to 112 repositories, opened 825 issues, performed 1336 code reviews, and have opened 1148 pull requests.

I maintain 20 Python packages on PyPI (downloaded 5,637 times last month), have 31 archived releases on Zenodo, and my work has received 77 citations.

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  1. WayScience/ome-arrow WayScience/ome-arrow Public

    Using OME specifications with Apache Arrow for fast, queryable, and language agnostic bioimage data.

    Python 7 1

  2. cytomining/CytoTable cytomining/CytoTable Public

    Harmonize high-content image analysis tool outputs for processing with Pycytominer and other Cytomining tools.

    Python 20 6

  3. cytomining/CytoDataFrame cytomining/CytoDataFrame Public

    An in-memory data analysis format for single-cell profiles alongside their corresponding images and segmentation masks.

    Python 13 2

  4. cytomining/pycytominer cytomining/pycytominer Public

    Python package for image-based profiling

    Python 144 41

  5. software-gardening/almanack software-gardening/almanack Public

    An open-source handbook of applied guidance and tools for sustainable software development and maintenance.

    Jupyter Notebook 24 6

  6. xqlsystems/duckdb-zarr xqlsystems/duckdb-zarr Public

    Query Zarr stores with SQL directly from DuckDB

    Rust 20 1