Overview

This is the development home of the workflow management system Snakemake. For general information, see

Install Get started quickly

Tutorial Learn the basics

Documentation Explore the docs

Repository activity

2684 Stargazers 620 Forks

Execution environment

Resource Managers

• any DRM providing a script based submission interface (e.g. slurm, lsf, pbs, ...)
• kubernetes
• google life sciences API
• tibanna
• TES

Terminology Terminology below follows the definitions established by the Workflows Community Terminology.

Characteristics

Flow

Task

Iterative

Granularity

Sub-workflows

Executables

Functions

Coupling

Loose

Tight

Dynamicity

Branches

Domain

Agnostic

Composition

Description

Ad-hoc Schema

Abstraction

Abstract

Modularity

Flat

Hierarchical

Orchestration

Planning

Static

Dynamic

Event-driven

Execution

Runner

Data Management

Transport

File-based

Storage

Shared

Distributed

Metadata Capture

Anomaly Detection

Monitoring

Provenance

Extensions

Plugins

Scripting integration

Software deployment integration

Interactive reporting