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@hgb-bin-proteomics

FHOOE Hagenberg Bioinformatics/Proteomics Research Group

Bioinformatics/Proteomics Research Group of the FH OOE Hagenberg
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  1. MSAmanda MSAmanda Public

    MS Amanda is a scoring system to identify peptides out of tandem mass spectrometry data using a database of known proteins.

    3

  2. MSAnnika MSAnnika Public

    MS Annika is a crosslink search engine based on MS Amanda, aimed at identifying crosslinks of cleavable and non-cleavable crosslinkers from MS2 and MS3 spectra.

    6

  3. MSAnnika_Extensions MSAnnika_Extensions Public

    List of all available extensions for our cross-linking search engine MS Annika.

  4. MSAnnika_Spectral_Library_exporter MSAnnika_Spectral_Library_exporter Public

    Generate a spectral library for Spectronaut from MS Annika results.

    Python

  5. MSAnnika_FDR MSAnnika_FDR Public

    A script and functions to group and validate MS Annika results.

    Python

  6. CandidateSearch CandidateSearch Public

    Proof-of-concept implementation of a search engine that uses sparse matrix multiplication to identify the best peptide candidates for a given mass spectrum.

    C# 1 1

Repositories

Showing 10 of 21 repositories
  • MSAnnika_Combine_Results Public

    A script to merge and optionally validate several MS Annika search results.

    hgb-bin-proteomics/MSAnnika_Combine_Results’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Dec 19, 2024
  • MSAnnika_CSM_Annotation Public

    Calculates Intensities of Cross-linked Peptides from MS Annika CSMs.

    hgb-bin-proteomics/MSAnnika_CSM_Annotation’s past year of commit activity
    Python 1 MIT 0 1 0 Updated Dec 19, 2024
  • MSAnnika_FDR Public

    A script and functions to group and validate MS Annika results.

    hgb-bin-proteomics/MSAnnika_FDR’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Dec 19, 2024
  • MSAnnika_exporters Public

    Export MS Annika crosslink results to different formats.

    hgb-bin-proteomics/MSAnnika_exporters’s past year of commit activity
    Python 3 MIT 0 1 (1 issue needs help) 0 Updated Dec 19, 2024
  • MSAnnika_Spectral_Library_exporter Public

    Generate a spectral library for Spectronaut from MS Annika results.

    hgb-bin-proteomics/MSAnnika_Spectral_Library_exporter’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Dec 19, 2024
  • CandidateVectorSearch_template Public template

    Template repository for custom backends in MS Annika.

    hgb-bin-proteomics/CandidateVectorSearch_template’s past year of commit activity
    C++ 0 MIT 0 4 0 Updated Dec 19, 2024
  • CandidateVectorSearch Public

    Searching for peptide candidates using sparse matrix + matrix/vector multiplication.

    hgb-bin-proteomics/CandidateVectorSearch’s past year of commit activity
    C++ 1 MIT 1 1 0 Updated Dec 19, 2024
  • CandidateSearch Public

    Proof-of-concept implementation of a search engine that uses sparse matrix multiplication to identify the best peptide candidates for a given mass spectrum.

    hgb-bin-proteomics/CandidateSearch’s past year of commit activity
    C# 1 MIT 1 0 0 Updated Dec 19, 2024
  • MSAnnika_NC_Results Public archive

    Repository containing scripts used for the analysis and visualization of the results of the MS Annika 3.0 non-cleavable crosslink search.

    hgb-bin-proteomics/MSAnnika_NC_Results’s past year of commit activity
    HTML 0 0 0 0 Updated Dec 19, 2024
  • MSAnnika Public

    MS Annika is a crosslink search engine based on MS Amanda, aimed at identifying crosslinks of cleavable and non-cleavable crosslinkers from MS2 and MS3 spectra.

    hgb-bin-proteomics/MSAnnika’s past year of commit activity
    6 0 6 0 Updated Dec 19, 2024
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