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---
title: "Biofoundry Workflows"
subtitle: "Abstraction hierarchy of workflows and unit operations for biofoundry automation"
---
## Overview
- Due to differences in terminology, concepts, and scope among biofoundry researchers, there are limitations in utilizing physically/logically standardized automated equipment and software
- Conceptually subdividing and structuring the processes required in biofoundries enables standardized execution and management of processes, thereby improving biofoundry performance
- We propose a 4-level abstraction hierarchy (Project, Service/Capability, Workflow, Unit Operation) to standardize biofoundries and streamline the DBTL cycle. This framework improves modularity, automation, and reproducibility while enabling better integration of AI tools, ultimately supporting a globally interoperable biofoundry network for collaborative synthetic biology. See [Biofoundry Workflow Abstraction Hierarchy](resources/Biofoundry_workflow_Abstraction_hierarchy_manuscript_v250605.pdf) and its [Supplement Information](resources/Biofoundry_workflow_Abstraction_hierarchy_suppl_v250605.pdf)
## Workflow Concepts
- **Workflow**: Defined as a logical, sequential flow of unit processes that can include part or all of the DBTL (Design-Build-Test-Learn) stages of experiments. Can be utilized as a basic unit for measuring biofoundry performance and developing automation levels.
- **Unit Operation**: The minimum unit process of experiments, where one unit operation is defined to correspond to one piece of equipment (UO) or one software (US)
## Purpose of This Repository
- Definition and management of workflow and unit operation concepts
- Concept updates through opinion exchange
## Quick Navigation
::: {.grid}
::: {.g-col-6}
### [Workflows](workflows.qmd)
Browse the complete collection of standardized workflows organized by DBTL phases:
- Design workflows
- Build workflows
- Test workflows
- Learn workflows
:::
::: {.g-col-6}
### [Unit Operations](unit-operations-hw.qmd)
Explore unit operations categorized by type:
- [Hardware operations](unit-operations-hw.qmd)
- [Software operations](unit-operations-sw.qmd)
:::
:::
## Contributing
We welcome contributions and feedback! Please use the [issue board](https://github.com/sblabkribb/biofoundry_workflows/issues) for suggestions and discussions about workflow and unit operation definitions.