Ecosyste.ms: Awesome
An open API service indexing awesome lists of open source software.
Projects in Awesome Lists by Midnighter
A curated list of projects in awesome lists by Midnighter .
https://github.com/Midnighter/structurizr-python
A Python 3 port of Simon Brown's Structurizr diagrams-as-code architecture description tool.
c4-model diagrams-as-code software-architecture structurizr structurizr-api
Last synced: 07 Aug 2024
https://github.com/midnighter/nextflow-gotchas
A collection of unexpected challenges and learnings with nextflow and nf-core.
gotcha nextflow nextflow-pipeline nextflow-process nextflow-workflow nf-core
Last synced: 09 Nov 2024
https://github.com/midnighter/fastapi-mount
A minimal application for prototyping mounting the main FastAPI at a sub path.
fastapi gunicorn mount py37 python script-name starlette uvicorn uvicorn-gunicorn
Last synced: 09 Nov 2024
https://github.com/midnighter/errorpages-demo
A Docker stack that demonstrates different desirable behaviour of the traefik errors middleware. Please read the accompanying post.
docker docker-compose docker-image errors errors-middleware middleware nginx traefik
Last synced: 09 Nov 2024
https://github.com/midnighter/nextflow-utility-services
A collection of Groovy classes that provide utility services to nextflow pipelines.
Last synced: 09 Nov 2024
https://github.com/midnighter/brenda-parser
Classes to parse the BRENDA database.
Last synced: 09 Nov 2024
https://github.com/midnighter/fastapi-base
A base Docker image for microservices using FastAPI. The Docker image environment is based on Alpine Linux or Debian.
alpine-image asgi debian-image docker fastapi microservices py38 python starlette
Last synced: 09 Nov 2024
https://github.com/midnighter/notebooks-launcher
script to handle setting up, launching, and shutting down of ipython notebook instances per user.
Last synced: 09 Nov 2024
https://github.com/midnighter/metanetx-sdk
Parse and process information from MetaNetX for MIRIAM compatibility using the Identifiers.org registries.
bioinformatics identifiers-org metanetx miriam sdk
Last synced: 09 Nov 2024
https://github.com/midnighter/jinja2-ospath
A tiny Jinja2 extension that introduces dirname and basename as template filters.
Last synced: 09 Nov 2024
https://github.com/midnighter/cookiecutter-python-package
A complete Python package cookiecutter template with lots of bells and whistles.
Last synced: 09 Nov 2024
https://github.com/midnighter/tyche
Randomly sub-sample sequencing reads to a specified coverage or number of bases.
Last synced: 09 Nov 2024
https://github.com/midnighter/dependency-info
Retrieve and print Python package dependencies.
Last synced: 09 Nov 2024
https://github.com/midnighter/pip-compile
A minimal Docker image that provides a Python environment with pip-tools in order to lock requirements files.
alpine-image debian-image docker docker-image pip-tools py38 python
Last synced: 09 Nov 2024
https://github.com/midnighter/jupyter_presentation
Material and notebooks for an interactive Jupyter presentation.
Last synced: 09 Nov 2024
https://github.com/midnighter/x-grumpy
A Docker image that can be run with x11docker in order to access the ScrumPy GUI without hassle.
Last synced: 09 Nov 2024
https://github.com/midnighter/nf-core-adr
Structurizr documentation of nf-core
architecture-decision-records nextflow nf-core structurizr
Last synced: 09 Nov 2024
https://github.com/midnighter/cookiecutter-nf-plugin
A cookiecutter template for creating nextflow plugins.
cookiecutter cookiecutter-nextflow nextflow nextflow-plugin plugin template
Last synced: 09 Nov 2024
https://github.com/midnighter/polymorphiccpp
Classes and functions demonstrating some of the tricky polymorphic behaviour of C++
Last synced: 09 Nov 2024
https://github.com/midnighter/conifer-analysis
Post-process conifer output for downstream statistical analysis.
Last synced: 09 Nov 2024
https://github.com/midnighter/everyday-utilities
a collection of classes and functions for various non-project related purposes
Last synced: 09 Nov 2024
https://github.com/midnighter/kraken2-bracken-test-db
Temporary place to host the kraken2 & Bracken database construction pipeline.
Last synced: 09 Nov 2024
https://github.com/midnighter/metanetx-assets
Transform MetaNetX components information and load them into SQL storage.
bioinformatics metanetx metanetx-assets sql
Last synced: 09 Nov 2024
https://github.com/midnighter/wikidata-analysis
Simple query to table conversion and language analysis.
Last synced: 09 Nov 2024
https://github.com/midnighter/visual-merge
Visualize package hierarchies and allow for links between different hierarchies.
Last synced: 09 Nov 2024
https://github.com/midnighter/travis-release-notes
Test repository for the improved Travis CI file-based release notes.
Last synced: 09 Nov 2024
https://github.com/midnighter/python-conda-travis
Template for testing Python packages on Travis-CI using Miniconda.
Last synced: 09 Nov 2024
https://github.com/midnighter/plasmid-verification
Semi-automated plasmid sequence verification.
Last synced: 09 Nov 2024
https://github.com/midnighter/mfinderwrapper
A python wrapper class for the mfinder C tool.
Last synced: 09 Nov 2024
https://github.com/midnighter/nf-join-map
Demonstrate problems with merging channels using a map as the key to merge by.
Last synced: 09 Nov 2024
https://github.com/midnighter/meetup-ipyparallel
Material for the ipyparallel presentation at the Python Users Berlin meetup Oct 2016.
Last synced: 09 Nov 2024
https://github.com/midnighter/frog
Analysis of 50 metabolic models using the opencobra/jeweler pipeline.
Last synced: 09 Nov 2024
https://github.com/midnighter/rfn-analysis
Data extraction from and analysis of flow networks.
Last synced: 09 Nov 2024
https://github.com/midnighter/conda-mnx
A Docker image that contains a conda environment with all of the mnx command line tools installed.
conda docker metanetx metanetx-assets metanetx-post metanetx-sdk
Last synced: 09 Nov 2024
https://github.com/midnighter/mulled
Svelte.js SPA to generate multi-package BioContainers image names
biocontainers container-image multi-package
Last synced: 09 Nov 2024
https://github.com/midnighter/xunit
A working example of the xUnit testing tool described in Kent Beck's "Test-Driven Development by Example" implemented in more modern Python code.
Last synced: 09 Nov 2024
https://github.com/midnighter/nextflow-r-source
A minimal nextflow project that demonstrates how to source R scripts from the bin directory.
Last synced: 09 Nov 2024
https://github.com/midnighter/nf-slack
Create notification messages from nextflow using incoming webhooks for Slack.
Last synced: 09 Nov 2024
https://github.com/midnighter/cpdb-wsdl
testing of the ConsensusPathDB SOAP/WSDL API
Last synced: 09 Nov 2024
https://github.com/midnighter/network-rewiring
Fast methods for rewiring networks maintaining various properties.
Last synced: 09 Nov 2024
https://github.com/midnighter/aws-ipyparallel-cluster
Manage an ipyparallel cluster on AWS EC2.
Last synced: 09 Nov 2024
https://github.com/midnighter/conda-base
Provide Docker images with different Python versions in the conda base environment.
conda docker miniconda3 python3
Last synced: 09 Nov 2024
https://github.com/midnighter/docker-compose-rails
Create a rails up with PostgreSQL running in docker containers.
Last synced: 09 Nov 2024
https://github.com/midnighter/multi-package-biocontainers
Panel app for generating the name of multi-package BioContainers.
biocontainers mulled multi-package
Last synced: 09 Nov 2024
https://github.com/midnighter/codecov-demo
Demonstrate a working codecov.io report on a repository
Last synced: 09 Nov 2024
https://github.com/midnighter/combine2020-equilibrator
An interactive tutorial on using eQuilibrator for including thermodynamic information in metabolic modeling. Prepared for COMBINE2020.
Last synced: 09 Nov 2024
https://github.com/midnighter/metanetx-reports
A collection of Rmarkdown reports that provide information on the parsed MetaNetX content.
Last synced: 09 Nov 2024
https://github.com/midnighter/angular-cookbook
Course project for udemy.com: Angular 5 - The Complete Guide.
Last synced: 09 Nov 2024
https://github.com/midnighter/python-minimal-extension
A minimal Python extension that includes numpy headers in order to test building on CI platforms.
Last synced: 09 Nov 2024
https://github.com/midnighter/python-conda-appveyor
Template for testing Python projects on AppVeyor using Miniconda.
Last synced: 09 Nov 2024
https://github.com/midnighter/metanetx-post
Post-process compounds and reactions from MetaNetX augmenting structural information and adding reaction names.
Last synced: 09 Nov 2024
https://github.com/midnighter/nadist
Compute distance metrics between vectors with missing values.
Last synced: 09 Nov 2024
https://github.com/midnighter/hugo-quickstart
Hugo publishing test repository
Last synced: 09 Nov 2024
https://github.com/midnighter/ipydra
Web interface for spawning IPython Notebook servers.
Last synced: 09 Nov 2024
https://github.com/midnighter/metanetx-nf
A Nextflow pipeline for extracting, transforming, augmenting, and loading the MetaNetX contents into a SQL database.
metanetx nextflow nextflow-pipeline
Last synced: 09 Nov 2024
https://github.com/midnighter/sratools-settings-poc
Proof of concept showing a different way to handle the NCBI settings.
Last synced: 09 Nov 2024
https://github.com/midnighter/sanger-ui
A modern web app for the pleasant investigation of Sanger sequencing results.
Last synced: 09 Nov 2024
https://github.com/midnighter/testing-in-style
Interactive presentation on all things testing in Python
Last synced: 09 Nov 2024
https://github.com/midnighter/calculator-demo
Demonstrate testing on a simple calculator
Last synced: 09 Nov 2024
https://github.com/midnighter/conifer-docker
A Docker image for the conifer utility.
Last synced: 09 Nov 2024
https://github.com/midnighter/regpy
Python based simulation of digital and analog regulatory control
Last synced: 09 Nov 2024
https://github.com/midnighter/rfn-generation
Generation of flow networks robust against damages.
Last synced: 09 Nov 2024
https://github.com/midnighter/starlette-delay
Experiment with internal delay of asynchronous tasks caused by the event loop.
Last synced: 09 Nov 2024
https://github.com/midnighter/useobserver-demo
A tiny demonstration of the useObserver mobx-react-lite hook in combination with mobx-state-tree.
mobx mobx-react-lite mobx-state-tree props react-hooks reactjs typescript
Last synced: 09 Nov 2024
https://github.com/midnighter/black-presentation
A short presentation on formatting with Black for the PyData Meetup Copenhagen.
Last synced: 09 Nov 2024
https://github.com/midnighter/travis-osx-python
Prototype of selecting different Python versions for OS X on Travis CI.
Last synced: 09 Nov 2024
https://github.com/midnighter/table-merging
Python functionality for merging spreadsheets describing organizations.
Last synced: 09 Nov 2024
https://github.com/midnighter/foggy-march
A simple module for random walks on networks.
Last synced: 09 Nov 2024