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Astral Data

Support for Astral Data

In order to process crosslinking data from Astral instruments we recommend using MS Annika 3.0 v3.0.5  or greater (e.g. latest ). Although theoretically all MS Annika versions support Astral data, earlier versions require sufficient hardware for processing RAW files of more than 100 000 spectra (specifically enough memory, 128GB+ is recommended). MS Annika version 3.0.5+ is memory optimized and runs on standard commodity hardware. We also recommend disabling the following parameter:

  • MS Annika Detector Node:
    • Doublet Selection:
      • Try infer missing charge states: False (If this parameter is not visible, please check that Show Advanced Parameters is on).

Recommendations for Astral Data

We recommend running searches on Astral data in Proteome Discoverer 3.1 using MS Annika 3.0 v3.0.7 . For your convenience, we also supply several analysis templates for Astral searches. Please note that all of these workflows additionally require the installation of MS Amanda  which can be downloaded here  or installed via the Proteome Discoverer Third-Party installer.

We generally also recommend deisotoping spectra e.g. via the IMP MS2 Spectrum Processor . The following workflows can be used with the IMP MS2 Spectrum Processor node:

Expected Performance on Astral Data

Giving an estimate on performance is hard without knowing the specific sample and data analysis hardware, but full human-proteome-wide searches should roughly take between 2h-3h per file on modern hardware. Read more here .

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Example WorkflowsMGF and timsTOF Data