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@Nesvilab

Nesvilab

Alexey Nesvizhskii's proteome bioinformatics group.

Pinned

  1. FragPipe FragPipe Public

    A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data

    Java 172 37

  2. MSFragger MSFragger Public

    Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

    HTML 95 7

  3. MSBooster MSBooster Public

    MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring

    Java 15 1

  4. philosopher philosopher Public

    PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering

    Go 109 17

  5. PTM-Shepherd PTM-Shepherd Public

    A tool for summarizing open search results

    Java 14 5

  6. IonQuant IonQuant Public

    A label free quantification tool.

    15 8

Repositories

Showing 10 of 38 repositories
  • easypqp Public Forked from grosenberger/easypqp

    EasyPQP: Simple library generation for OpenSWATH

    Nesvilab/easypqp’s past year of commit activity
    Python 0 BSD-3-Clause 12 0 0 Updated Jun 18, 2024
  • FragPipe Public

    A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data

    Nesvilab/FragPipe’s past year of commit activity
    Java 172 37 42 1 Updated Jun 14, 2024
  • philosopher Public

    PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering

    Nesvilab/philosopher’s past year of commit activity
    Go 109 GPL-3.0 17 14 (1 issue needs help) 0 Updated Jun 12, 2024
  • FragPipe-Analyst Public

    An easy-to-use and interactive web application for FragPipe

    Nesvilab/FragPipe-Analyst’s past year of commit activity
    0 1 1 0 Updated Jun 12, 2024
  • PTM-Shepherd Public

    A tool for summarizing open search results

    Nesvilab/PTM-Shepherd’s past year of commit activity
    Java 14 Apache-2.0 5 0 0 Updated Jun 12, 2024
  • Nesvilab/FragPipeAnalystR’s past year of commit activity
    R 3 GPL-3.0 1 2 0 Updated Jun 11, 2024
  • EntrapBench Public

    Generate entrapment database and calculate false discovery proportion (FDP)

    Nesvilab/EntrapBench’s past year of commit activity
    Java 4 Apache-2.0 1 0 0 Updated Jun 11, 2024
  • diaTracer Public

    A diaPASEF spectrum-centric analysis tool

    Nesvilab/diaTracer’s past year of commit activity
    10 1 1 0 Updated Jun 10, 2024
  • MSBooster Public

    MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring

    Nesvilab/MSBooster’s past year of commit activity
    Java 15 LGPL-3.0 1 0 0 Updated Jun 3, 2024
  • IonQuant Public

    A label free quantification tool.

    Nesvilab/IonQuant’s past year of commit activity
    15 8 3 0 Updated May 29, 2024