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Some mzML files are reported to have 0 MS/MS spectra. For example: [MSV000083463/Milk_final_11712.SUBJECT57.MBM.1333.mzML](https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=0a4e79b555eb4987b3cd0e03…
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In a different framework, I posted a question regarding whether one can read Thermo or Sciex files directly (https://github.com/chhh/batmass/issues/9#issuecomment-325176434). Is it possible with msdk?…
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I am using R-version 4.2.2 and trying to run xcms for GC-data. The first part of the data processing - to extract information of the chromatography peaks is giving error.
Here is the code I am trying…
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Hi,
I'd like to ask if there's currently a way to write out a `Spectra` S4 object, probably initially read as `.mzML` or `.mzXML`, as `.h5`? There doesn't seem to be this capability from what I'm …
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The function extractMS2spectra seem to work with the provided files on the package but does not process high-resolution DDA MS2 data. The function "extractMS2spectra" works and you can see the length …
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Is there is an interest in adding mass spectrometry (MS) data to this project? If so, we have a nice implementation to support MS data formats e.g. mzXML and mgf, please let us know how to proceed.
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### Basic information
* My operating system and version: MacOS sonoma 14.0
* My MZmine version: 3.9.0
### What happened
* On processing mzxml files in mzmine for ADAP chromatogram builder, I…
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### Basic information
* My operating system: macOS
* My MZmine version: 3.0.54-beta
* Input file: [peak/P4_Data/5C3_RC3_01_5370.mzXML from MSV000079398](https://massive.ucsd.edu/ProteoSAFe/datase…
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Is there any dataset that can be used for new users to learn and test the workflow?
The following files will be necessary:
Spectrum Files (Required): mzML, mzXML, mgf?
Sequence Files (Required): f…
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Jamie has already figured out .mzXML file structure for spectra acquired via data-dependent acquisition (DDA) on the Q Exactive
Has some code to do this at a rudimentary level that can be used as a…