| API | Application programming interface |
| BSD | Berkeley Source Distribution |
| CLI | Command line interface |
| CSV | Comma-Separated Values |
| CWL | Common Workflow Language |
| DOI | Digital Object Identifier |
| FAIR | Findable, accessible, interoperable, reusable |
| GPL | GNU General Public License |
| GUI | Graphical user interface |
| HTTPS | Hypertext Transfer Protocol Secure |
| JSON | JavaScript Object Notation |
| JSON-LD | JSON for Linked Data |
| LC-MS | Liquid Chromatography–Mass Spectrometry |
| LC-MS2 | Liquid Chromatography–Tandem Mass Spectrometry |
| MAW | Metabolome Annotation Workflow |
| MAW-Py | Metabolome Annotation Workflow—Python Segment |
| MAW-R | Metabolome Annotation Workflow—R Segment |
| OWL | Web Ontology Language |
| PID | Persistent identifier |
| RDF | Resource Description Framework |
| WfMS | Workflow management system |
| TXT | Text |
| URL | Uniform Resource Locator |
| YAML | Yet Another Markup Language or YAML ain’t markup language |