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Midnighter - Overview

About Me

As a bioinformatician, one of my guiding questions is, "How can I use my knowledge of biological research and software development for the good of humanity?"

This question leads me to the following topics that I am very passionate about:

  • Thinking in systems, both biological networks and software architecture.
  • Designing automated solutions for and with human beings.
  • Access to and transparency of knowledge as embodied by, for example, the open science movement or the Open Knowledge Foundation and Wikipedia to name but a few.

Contact

You can also find me on the following platforms:

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  1. Retrieve and print Python package dependencies.

    Python 4 3

  2. Parse and process information from MetaNetX for MIRIAM compatibility using the Identifiers.org registries.

    Python 5

  3. A Python 3 port of Simon Brown's Structurizr diagrams-as-code architecture description tool.

    Python 67 16

  4. A base Docker image for microservices using FastAPI. The Docker image environment is based on Alpine Linux or Debian.

    Shell 9 2

  5. COBRApy is a package for constraint-based modeling of metabolic networks.

    Python 547 235

  6. memote – the genome-scale metabolic model test suite

    HTML 145 33