LUMC / pytest-workflow
Configure workflow/pipeline tests using yaml files.
☆67Updated 8 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
- Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; a…☆63Updated 3 weeks ago
- Parse Illumina sample sheets with Python☆50Updated last year
- Monitor computational workflows in real time☆72Updated 10 months ago
- Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)☆14Updated 4 years ago
- Testing building mulled containers for multi-requirement tools.☆71Updated this week
- Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.☆62Updated 5 months ago
- non-redundant, compressed, journalled, file-based storage for biological sequences☆40Updated this week
- Simple pure Python SAM parser and objects for working with SAM records☆64Updated 2 years ago
- Project metadata manager for PEPs in Python☆37Updated 6 months ago
- A cookiecutter template for Snakemake workflows☆58Updated 3 years ago
- [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows☆43Updated last year
- A Snakemake executor plugin for submitting jobs to a SLURM cluster☆31Updated last week
- WDL tools for parsing, type-checking, and more☆25Updated last week
- A collection of reusable WDL tasks. Category:Other☆86Updated last week
- SQL support plugin for Nextflow☆26Updated 2 months ago
- Efficient handling of FASTQ files from Python☆51Updated 7 months ago
- Workflow Description Language developer tools & local runner☆188Updated this week
- Efficiently read and write sequencing data from Python☆62Updated last week
- deploy a snakemake pipeline directly from version control (under development)☆23Updated last month
- fast, memory-efficient, pythonic (and command-line) access to fasta sequence files☆87Updated 7 years ago
- ☆30Updated last week
- Create cwl workflows by writing a simple Python script☆40Updated 4 years ago
- Python utilities for CWL☆39Updated last month
- An open-source, cloud-ready web application for simplified deployment of big data workflows.☆33Updated 9 months ago
- ☆9Updated 5 months ago
- Transcript versions for HGVS libraries☆30Updated 3 months ago
- Python 3 library with good support for both reading and writing VCF☆108Updated 9 months ago
- The snakemake interface, currently works like a notebook (under development)☆18Updated 3 years ago
- Efficient variant-call data storage and retrieval library using the TileDB storage library.☆93Updated last week