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Public Workflows at GNPS
https://gnps.ucsd.edu/
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Component index vs. Cosine score error #832

Open FedeFi opened 2 years ago

FedeFi commented 2 years ago

There are some nodes that have same component index even if they are not connected with edges (as their cosine score is lower than 0.7). Also, there are some singletons with component index different than -1. See example below, mirror spectra in the link and figure of unconnected nodes with same component index in cytoscape: https://metabolomics-usi.ucsd.edu/dashinterface/?usi1=mzspec%3AGNPS%3ATASK-8b2e5a91710345a4b59e02cfa685b934-spectra%2Fspecs_ms.mgf%3Ascan%3A2664&usi2=mzspec%3AGNPS%3ATASK-8b2e5a91710345a4b59e02cfa685b934-spectra%2Fspecs_ms.mgf%3Ascan%3A5348&width=10.0&height=6.0&mz_min=None&mz_max=None&max_intensity=125&annotate_precision=4&annotation_rotation=90&cosine=standard&fragment_mz_tolerance=0.1&grid=True&annotate_peaks=%5B%5B%5D%2C%20%5B%5D%5D

image

mwang87 commented 2 years ago

Thats super weird. I suspect there is some weirdness in the number of the scan numbers in the input spectra file. Swing by office hours and we can take a look together.

FedeFi commented 2 years ago

Ok, thanks a lot!