LUMC / pytest-workflow
Configure workflow/pipeline tests using yaml files.
☆67Updated 7 months ago
Alternatives and similar repositories for pytest-workflow:
Users that are interested in pytest-workflow are comparing it to the libraries listed below
- WDL plugin for pytest☆48Updated last year
- [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows☆42Updated last year
- Monitor computational workflows in real time☆71Updated 9 months ago
- Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.☆61Updated 4 months ago
- Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)☆14Updated 4 years ago
- Simple pure Python SAM parser and objects for working with SAM records☆64Updated 2 years ago
- Parse Illumina sample sheets with Python☆50Updated last year
- The snakemake interface, currently works like a notebook (under development)☆18Updated 3 years ago
- Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; a…☆63Updated last month
- Testing building mulled containers for multi-requirement tools.☆71Updated last week
- Efficiently read and write sequencing data from Python☆62Updated 4 months ago
- Project metadata manager for PEPs in Python☆37Updated 5 months ago
- An open-source, cloud-ready web application for simplified deployment of big data workflows.☆33Updated 8 months ago
- ☆9Updated 4 months ago
- ☆29Updated this week
- A collection of reusable WDL tasks. Category:Other☆86Updated this week
- Augmented Interval Tree implemented in Cython/C☆19Updated 2 months ago
- deploy a snakemake pipeline directly from version control (under development)☆23Updated last week
- A cookiecutter template for Snakemake workflows☆57Updated 3 years ago
- NEAT (NExt-generation Analysis Toolkit) simulates next-gen sequencing reads and can learn simulation parameters from real data.☆52Updated 2 weeks ago
- Python wrapper around Nextflow.☆59Updated last week
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆33Updated 3 months ago
- WDL tools for parsing, type-checking, and more☆25Updated 7 months ago
- Create WDL documentation using Markdown.☆27Updated 2 weeks ago
- non-redundant, compressed, journalled, file-based storage for biological sequences☆40Updated this week
- Efficient handling of FASTQ files from Python☆51Updated 6 months ago
- Reference genome resource manager☆75Updated last year
- Workflow Description Language developer tools & local runner☆185Updated this week
- SQL support plugin for Nextflow☆26Updated last month
- Demonstrating best practices for bioinformatics command line tools☆26Updated 4 years ago