Pinned Repositories
dependency-info
Retrieve and print Python package dependencies.
errorpages-demo
A Docker stack that demonstrates different desirable behaviour of the traefik errors middleware. Please read the accompanying post.
fastapi-base
A base Docker image for microservices using FastAPI. The Docker image environment is based on Alpine Linux or Debian.
fastapi-mount
A minimal application for prototyping mounting the main FastAPI at a sub path.
httpx-limiter
A lightweight package that provides rate-limited httpx transports.
metanetx-sdk
Parse and process information from MetaNetX for MIRIAM compatibility using the Identifiers.org registries.
nextflow-gotchas
A collection of unexpected challenges and learnings with nextflow and nf-core.
structurizr-python
A Python 3 port of Simon Brown's Structurizr diagrams-as-code architecture description tool.
cobrapy
COBRApy is a package for constraint-based modeling of metabolic networks.
memote
memote – the genome-scale metabolic model test suite
Midnighter's Repositories
Midnighter/structurizr-python
A Python 3 port of Simon Brown's Structurizr diagrams-as-code architecture description tool.
Midnighter/httpx-limiter
A lightweight package that provides rate-limited httpx transports.
Midnighter/BRENDA-Parser
Classes to parse the BRENDA database.
Midnighter/fastapi-base
A base Docker image for microservices using FastAPI. The Docker image environment is based on Alpine Linux or Debian.
Midnighter/metanetx-sdk
Parse and process information from MetaNetX for MIRIAM compatibility using the Identifiers.org registries.
Midnighter/dependency-info
Retrieve and print Python package dependencies.
Midnighter/knowledge-chat
A framework to enable retrieval augmented generation (RAG) with knowledge graphs for chat applications.
Midnighter/kraken2-bracken-test-db
Temporary place to host the kraken2 & Bracken database construction pipeline.
Midnighter/mia
Microbiome analysis
Midnighter/plasmid-verification
Semi-automated plasmid sequence verification.
Midnighter/admin-requests
Midnighter/adr-manager
ADR-Manager
Midnighter/altair
Declarative statistical visualization library for Python
Midnighter/auto-engineer
Build enterprise grade apps that scale using AI
Midnighter/biom-format
The Biological Observation Matrix (BIOM) Format Project
Midnighter/course-implementing-eventsourcing
Midnighter/ffqf
Find FASTQ faster than ffq.
Midnighter/hatch
Modern, extensible Python project management
Midnighter/micromamba-docker
Micromamba for fast building of small conda-based containers
Midnighter/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
Midnighter/nf-slack
Create notification messages from nextflow using incoming webhooks for Slack.
Midnighter/pyos-package-template
A Python package template that supports the pyOpenSci pure Python packaging tutorial
Midnighter/pyos-sphinx-theme
A standard sphinx theme that is customized to use the pyos theme and brand elements
Midnighter/python-novice-analysis-viz
Python analysis course material.
Midnighter/sanger-ui
A modern web app for the pleasant investigation of Sanger sequencing results.
Midnighter/simply-name.it-ddd
Context maps for the simply-name.it project.
Midnighter/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
Midnighter/taxopy
A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers
Midnighter/useobserver-demo
A tiny demonstration of the useObserver mobx-react-lite hook in combination with mobx-state-tree.
Midnighter/website
Nextflow public web site