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Software gardening...
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Software gardening...
84 followers · 219 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 @xql-devs

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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 111 repositories, opened 811 issues, performed 1199 code reviews, and have opened 1102 pull requests.

I maintain 19 Python packages on PyPI (downloaded 17,519 times last month), have 31 archived releases on Zenodo, and my work has received 72 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. WayScience/iceberg-bioimage WayScience/iceberg-bioimage Public

    A format-agnostic framework for cataloging and querying bioimaging data (Parquet, OME-Zarr, OME-TIFF) with Apache Iceberg

    Python 2 1

  3. cytomining/CytoTable cytomining/CytoTable Public

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

    Python 20 6

  4. cytomining/CytoDataFrame cytomining/CytoDataFrame Public

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

    Python 12 2

  5. cytomining/pycytominer cytomining/pycytominer Public

    Python package for image-based profiling

    Python 142 40

  6. 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 7