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@proteomicsyates

Yates lab

Yates lab - Proteomics Laboratory

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  1. PINT PINT Public

    PINT is a new comprehensive web-based system to store, visualize, and query experimental proteomics data obtained under different experimental conditions and projects. PINT provides a very powerful…

    Java 4

  2. ProteinClusterQuant ProteinClusterQuant Public

    Protein Cluster Quant is a Java software for the analysis of complex proteomics samples (quantitative or not). It helps to reduce the redundancy of the peptide-to-protein relationship and to visual…

    Python 6 3

  3. proteoform_dbIndex proteoform_dbIndex Public

    extension of dbIndex module to index proteoforms

    Java 1

  4. GlycoMSQuant GlycoMSQuant Public

    This is a Java stand-alone tool for the quantitation of glyco sites. It calculates the proportion of different glyco-PTMs in a protein of interest. It supports data from IP2 (quant compare output f…

    Java 2

  5. pctsea-parent pctsea-parent Public

    PCTSEA (Proteomics Cell Type Enrichment Analysis) is a tool designed to statistically determine which cell types are significatively enriched in an input set of proteins with certain relative expre…

    Java

  6. utilities utilities Public

    General Java util classes used across different projects

    Java 1

Repositories

Showing 10 of 27 repositories
  • RawConverter Public Forked from YatesLab-Software-Repo/RawConverter

    RawConverter on proteomicsyates by the lab of John R. Yates III

    proteomicsyates/RawConverter’s past year of commit activity
    C# 1 Apache-2.0 1 0 0 Updated Aug 8, 2024
  • PINT Public

    PINT is a new comprehensive web-based system to store, visualize, and query experimental proteomics data obtained under different experimental conditions and projects. PINT provides a very powerful query system through the use of different proteomics-specific data query commands running over both the experimental features and external annotation…

    proteomicsyates/PINT’s past year of commit activity
    Java 4 Apache-2.0 0 1 6 Updated Aug 6, 2024
  • utilities Public

    General Java util classes used across different projects

    proteomicsyates/utilities’s past year of commit activity
    Java 0 Apache-2.0 1 0 4 Updated Aug 23, 2023
  • ProteinClusterQuant Public

    Protein Cluster Quant is a Java software for the analysis of complex proteomics samples (quantitative or not). It helps to reduce the redundancy of the peptide-to-protein relationship and to visualize the results in a bipartite network (Cytoscape).

    proteomicsyates/ProteinClusterQuant’s past year of commit activity
    Python 6 3 0 0 Updated Aug 23, 2023
  • proteoform_dbIndex Public

    extension of dbIndex module to index proteoforms

    proteomicsyates/proteoform_dbIndex’s past year of commit activity
    Java 0 Apache-2.0 1 0 0 Updated Aug 23, 2023
  • QuantParser Public

    Parser for quantitative data from files created by Census software.

    proteomicsyates/QuantParser’s past year of commit activity
    Java 0 Apache-2.0 0 0 0 Updated Jun 16, 2023
  • dbIndex Public

    Indexing of FASTA files for searching peptide masses and sequences

    proteomicsyates/dbIndex’s past year of commit activity
    Java 0 Apache-2.0 0 0 1 Updated May 23, 2023
  • ProteinAccessibilityCalculator Public

    Based on Jmol, it calculates the surface accessibility of specific sites in a given protein. Optionally it measures the distances between specific atoms of specific sites in the structure of the protein

    proteomicsyates/ProteinAccessibilityCalculator’s past year of commit activity
    Java 0 Apache-2.0 0 0 1 Updated Apr 17, 2023
  • mokapot Public Forked from wfondrie/mokapot

    Fast and flexible semi-supervised learning for peptide detection in Python

    proteomicsyates/mokapot’s past year of commit activity
    Python 0 Apache-2.0 16 0 0 Updated Feb 10, 2023
  • GlycoMSQuant Public

    This is a Java stand-alone tool for the quantitation of glyco sites. It calculates the proportion of different glyco-PTMs in a protein of interest. It supports data from IP2 (quant compare output files) and MaxQuant.

    proteomicsyates/GlycoMSQuant’s past year of commit activity
    Java 2 Apache-2.0 0 1 0 Updated Dec 21, 2022

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