GC-MS | features missing in the cytoscape file

[MelissaESPOSITO]

There are missing features in the Cytoscape file.
https://gnps.ucsd.edu/ProteoSAFe/status.jsp?task=ea8bae87c7f244508f151a5a57f66e15
features that are in my aligned table (from MZmineADAP) are missing in the Cytoscape but are in the GNPS job at "view all spectral libraries"
the example of feature 76 is illustrated in the following picture:

[MelissaESPOSITO]

From the 539 features that I have in the aligned table and the mgf, only 366 are in Cytoscape. Are the 173 missing features single nodes so not in the network?

[MelissaESPOSITO]

[lfnothias]

Is there any single nodes in the Cytoscape file ?

[MelissaESPOSITO]

with MS-Hub
https://gnps.ucsd.edu/ProteoSAFe/status.jsp?task=0412c4419679484790992a65bc44211b
https://gnps.ucsd.edu/ProteoSAFe/status.jsp?task=9c692c2a4d0c4fab94b21094516c1020
with MZmine
https://gnps.ucsd.edu/ProteoSAFe/status.jsp?task=ea8bae87c7f244508f151a5a57f66e15
https://gnps.ucsd.edu/ProteoSAFe/status.jsp?task=6a56f3f854e8434da30bb7613ee49343

[MelissaESPOSITO]

no, there is no single nodes in the Cytoscape file

[lfnothias]

Then it is likely the reason.
@mwang87 would that be reasonable to add an extra graphml file containing the single nodes ? Or something else would be best suited ?

[mwang87]

Sorry to be late on the follow up, seems reasonable to add singletons into the graphml. we could add another file like we do for classic networking.