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GNPS2 Tool Index

This is a global tool index for GNPS2. Throughout this documentation we have very detailed information for how to use way more tools than we though we'd have, but its a good problem to have!

However, we recognize it might be difficult for people to simply see what all is availble in GNPS as tool and web services. This table is always evolving and hope to make it easier for people to navigate.

Please help us fill in more completely!

GNPS2 Web Tools

These are web tools that is run by the GNPS2 team and provides complementary funcationality to GNPS2.

Tool Documentation Source Code Citation
Pubmed Co-Authors List --- ---
Nature Journals Author Quick Entry --- ---
GNPS2 Spectral Similarity Hub --- ---
GNPS2 Structure Server --- ---
GNPS2 Cytoscape --- ---
Metabolomics Spectrum Resolver Documentation GitHub Citation
GNPS2 Networking URL Formatter --- ---
GNPS2 Classical Networking Upset Plot Dashboard --- GitHub ---
GNPS2 FBMN Upset Plot Dashboard --- ---
NP Classifier --- GitHub ---
GNPS2 Dashboard --- ---
GNPS2 Plotter Dashboard (Beta) --- ---
GNPS2 Dataset File Explorer (Beta) --- ---
GNPS2 Public Libraries Download List --- ---
GNPS2 Spectral Similarity Hub --- ---
GNPS2 Tiny Mass Sharer --- ---

GNPS2 Jupyter Notebooks

These notebooks are for postprocessing of results from GNPS/GNPS2 and other computational processing that have not be integrated yet. If they are super useful, we can integrate into high throughput workflows. For now, give them a try!

Tool Documentation Source Code Binder Launch
GNPS2 MASST Post Processing --- GitHub Binder
GNPS2 MassQL and Networking Integration --- GitHub Binder
GNPS2 Networking Family Consistent Fragmentation --- GitHub Binder
GNPS2 MassQL Post Processing --- GitHub Binder
CMMC Integration --- GitHub Binder

Community Tools GNPS2 Interfaces with

Tool Publication Citation
NPAtlas Citation
MIBiG Citation
ClassyFire Citation
SMART NMR Citation
MassBank Citation
Cytoscape Citation
ProteoWizard Citation
SNAP-MS Citation and Documentation

Last update: December 5, 2023 20:52:38