MS2 spectra without a precursor charge are ignored

[YasinEl]

MS2 spectra without a precursor charge are ignored

[bittremieux]

We're mainly using the charge to split the spectra into charge-disjoint groups, to avoid that spectra with different charge states are clustered together. This is more relevant for proteomics data of course, where you'll encounter more different charges.

We can look into how we can generalize the code a bit so that this information is no longer mandatory to be present.

[Janne98]

Hi!
Have you checked if there's a charge specified in the files? The current version of falcon discards spectra with a missing charge value.

[YasinEl]

Hey, yes seems like there is no charge reported. Unfortunately, that's common in public metabolomics data. Are you using the charge information in some way or you using this basically as a noise filter?
Thanks!