LUMC / pytest-workflowLinks
Configure workflow/pipeline tests using yaml files.
☆71Updated last year
Alternatives and similar repositories for pytest-workflow
Users that are interested in pytest-workflow are comparing it to the libraries listed below
Sorting:
- WDL plugin for pytest☆49Updated 2 years ago
- Monitor computational workflows in real time☆74Updated last year
- SQL support plugin for Nextflow☆32Updated 3 months ago
- Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)☆15Updated 4 years ago
- Create cwl workflows by writing a simple Python script☆40Updated 5 years ago
- Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.☆62Updated 4 months ago
- A Github action for running a Snakemake workflow☆62Updated 2 weeks ago
- A cookiecutter template for Snakemake workflows☆60Updated 3 years ago
- [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows☆44Updated 2 years ago
- Python wrapper around Nextflow.☆61Updated 2 months ago
- Python utilities for CWL☆42Updated this week
- Simple pure Python SAM parser and objects for working with SAM records☆64Updated 3 years ago
- The WES API is a standard way to run and manage portable workflows.☆86Updated 3 weeks ago
- Modular job submitter for arbitrary pipelines or commands.☆24Updated last month
- Rust Backend for PyRanges Operations. More featureful and much faster replacement for the NCLS library☆29Updated last week
- transparently build CWL and Galaxy XML tool definitions for any script that uses argparse☆27Updated last year
- Nextflow plugin to render provenance reports for pipeline runs. Supports standard formats such as BioCompute Object and Workflow Run RO-C…☆30Updated last month
- a cythonized, extended version of the interval search tree in bx☆30Updated 6 years ago
- A translator from WDL to CWL v1.2☆27Updated 2 weeks ago
- Open compressed files in Python☆80Updated 2 months ago
- This repository contains the source code of JUDI, a workflow management system for developing complex bioinformatics software with many p…☆33Updated 4 years ago
- non-redundant, compressed, journalled, file-based storage for biological sequences☆47Updated last month
- Pandas DataFrames for phylogenetics☆74Updated 4 years ago
- An open-source, cloud-ready web application for simplified deployment of big data workflows.☆36Updated 7 months ago
- Project metadata manager for PEPs in Python☆38Updated last week
- A Jupyter wrapper for the igv.js library (representation of genomic data)☆26Updated 4 years ago
- Parse Illumina sample sheets with Python☆50Updated last year
- Documentation for PEP specification and all PEPkit software☆10Updated last week
- a simple read-only sequence database, designed for short reads☆65Updated last year
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆34Updated last year