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    22 repositories

    • massdash

      Public
      MassDash: A web-based dashboard for streamlined DIA-MS visualization, analysis, prototyping, and optimization
      visualizationmass-spectrometrydata-independent-acquisition
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •3•19•17•7•Updated Dec 9, 2024Dec 9, 2024

    • pyprophet

      Public
      PyProphet: Semi-supervised learning and scoring of OpenSWATH results.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •21•0•1•0•Updated Dec 4, 2024Dec 4, 2024

    • diffusion-deconvolution-dia-msms-data

      Public
      🚀 Winner of the Donnelly Centre Innovation and Commercialization award: Apply diffusion models to deconvolute highly multiplexed DIA-MS/MS data by conditioning on MS1 signals to generate cleaner MS2 data for downstream analysis.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •3•2•0•0•Updated Dec 2, 2024Dec 2, 2024

    • OpenMS

      Public
      The codebase of the OpenMS project
      C++
      •
      Other
      •318•1•0•3•Updated Oct 9, 2024Oct 9, 2024

    • massformer

      Public
      Tandem Mass Spectrum Prediction with Graph Transformers
      Python
      •
      BSD 2-Clause "Simplified" License
      •27•74•1•0•Updated Aug 26, 2024Aug 26, 2024

    • PaPrInfer

      Public
      These are all the code that is associated with the project IDPicker vs EPIFANY
      Python
      •1•0•0•0•Updated Jul 6, 2024Jul 6, 2024

    • easypqp

      Public
      EasyPQP: Simple library generation for OpenSWATH
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •14•0•2•0•Updated May 26, 2023May 26, 2023

    • dia-pasef

      Public
      Scripts for DIA-Pasef
      Python
      •12•5•1•3•Updated Mar 29, 2023Mar 29, 2023

    • OpenSWATHIDPIcker

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Oct 24, 2022Oct 24, 2022

    • Aparna_Srinivasan_MS_Thesis_2022

      Public
      Aparna's MSc thesis related scripts
      Python
      •0•0•0•0•Updated Sep 29, 2022Sep 29, 2022

    • test_repository

      Public
      To test and learn git
      Python
      •2•1•2•4•Updated May 27, 2022May 27, 2022

    • diaproteomics

      Public
      Automated quantitative analysis of DIA proteomics mass spectrometry measurements.
      Nextflow
      •
      MIT License
      •12•1•0•0•Updated Apr 27, 2021Apr 27, 2021

    • DIAlignR

      Public
      This is a R package for alignment of DIA mass-spec data
      R
      •7•11•2•1•Updated Feb 24, 2021Feb 24, 2021

    • documentation

      Public
      This repository contains the website documentation for OpenSWATH.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •13•0•0•0•Updated May 22, 2020May 22, 2020

    • DrawAlignR

      Public
      An R package for the visualization of aligned ms2 chromatograms.
      R
      •
      MIT License
      •4•5•0•0•Updated Apr 9, 2020Apr 9, 2020

    • mstools

      Public
      R
      •1•1•0•0•Updated Feb 4, 2020Feb 4, 2020

    • PythonProteomics

      Public
      A collection of available Python tools for Proteomics analysis
      MIT License
      •12•49•0•0•Updated May 4, 2019May 4, 2019

    • Labnotebook-Template

      Public
      TeX
      •1•0•0•0•Updated Oct 17, 2018Oct 17, 2018

    • msproteomicstools

      Public
      Some hopefully useful tools for mass spectrometry applied to proteomics
      Python
      •
      Other
      •41•0•0•0•Updated Jun 14, 2018Jun 14, 2018

    • srmcollider

      Public
      Computes interferences in SRM (Selected Reaction Monitoring) experiments.
      Python
      •4•0•0•0•Updated Feb 9, 2018Feb 9, 2018

    • containers

      Public
      Bioinformatics containers
      Jupyter Notebook
      •
      Apache License 2.0
      •249•0•0•0•Updated Dec 1, 2017Dec 1, 2017

    • thesis-template

      Public
      A LaTeX template for academic theses
      TeX
      •
      MIT License
      •2•1•0•0•Updated Apr 19, 2016Apr 19, 2016