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    21 repositories

    • metaspace

      Public
      Cloud engine and platform for metabolite annotation for imaging mass spectrometry
      cloudbioinformaticsmetabolomics
      TypeScript
      •
      Apache License 2.0
      •10•47•90•3•Updated Oct 3, 2024Oct 3, 2024

    • metaspace-converter

      Public
      Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
      pythonmetaspaceanndataspatialdatascverse
      Python
      •
      Apache License 2.0
      •0•9•3•0•Updated Mar 16, 2024Mar 16, 2024

    • Lithops-METASPACE

      Public
      Lithops-based Serverless implementation of the METASPACE spatial metabolomics annotation pipeline
      metaspaceserverless-exampleslithopscloudbuttonspatial-metabolomicsserverless
      Jupyter Notebook
      •4•12•3•2•Updated Jul 6, 2023Jul 6, 2023

    • offsample

      Public
      Project to develop methods to recognize off-sample mass spectrometry images
      Jupyter Notebook
      •0•6•0•0•Updated Oct 8, 2020Oct 8, 2020

    • coloc

      Public
      Methods for measuring co-localization of ion images
      Vue
      •
      Apache License 2.0
      •2•7•2•0•Updated Oct 7, 2020Oct 7, 2020

    • pixel-annot-export

      Public archive
      Metaspace pixel annotation export snapshots
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 14, 2019Apr 14, 2019

    • sm-engine

      Public archive
      Engine for metabolite annotation for imaging mass spectrometry
      bioinformaticsmetabolomicsmass-spectrometryimagingimaging-mass-spectrometry
      Python
      •
      Apache License 2.0
      •5•7•0•0•Updated Jul 30, 2018Jul 30, 2018

    • sm-engine-ansible

      Public archive
      Setting up cloud infrastructure for the engine using Ansible
      Python
      •
      Apache License 2.0
      •6•2•0•1•Updated Jun 29, 2018Jun 29, 2018

    • sm-molecular-db

      Public archive
      Unified REST API for molecular database data
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Jun 28, 2018Jun 28, 2018

    • metadata

      Public archive
      Metadata for imaging mass spectrometry
      Apache License 2.0
      •2•1•0•0•Updated Jun 28, 2018Jun 28, 2018

    • sm-analytics-python

      Public archive
      Utilities for working with annotations
      Jupyter Notebook
      •
      Apache License 2.0
      •1•0•1•0•Updated Jun 28, 2018Jun 28, 2018

    • sm-graphql

      Public archive
      GraphQL server for communication between the frontend and the backend
      JavaScript
      •
      Apache License 2.0
      •2•0•0•1•Updated Jun 28, 2018Jun 28, 2018

    • sm-webapp

      Public archive
      Frontend of METASPACE web application
      vue2metabolomicsmass-spectrometryimagingmetaspacefrontend
      Vue
      •
      Apache License 2.0
      •3•5•0•2•Updated Jun 28, 2018Jun 28, 2018

    • metaspace-website

      Public
      Main website of the METASPACE project
      PHP
      •
      Apache License 2.0
      •2•1•0•1•Updated May 17, 2018May 17, 2018

    • survey

      Public
      Results of a community survey on imaging mass spectrometry in 2015
      Jupyter Notebook
      •
      Apache License 2.0
      •0•3•0•0•Updated May 17, 2018May 17, 2018

    • sm-models-server

      Public archive
      Prototype for the evaluation server (not ready).
      JavaScript
      •
      Apache License 2.0
      •1•0•0•0•Updated May 17, 2018May 17, 2018

    • sm-standalone

      Public archive
      [OBSOLETE]
      Python
      •
      Apache License 2.0
      •0•0•1•0•Updated May 17, 2018May 17, 2018

    • parsedatabases

      Public
      Tools for parsing public databases for inclusion in METASPACE
      Python
      •
      Apache License 2.0
      •1•0•0•0•Updated May 17, 2018May 17, 2018

    • ims-simulator

      Public
      Simulation of HR imaging mass spectrometry data
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated May 17, 2018May 17, 2018

    • data_serve

      Public
      HTML
      •
      Apache License 2.0
      •0•0•0•0•Updated May 17, 2018May 17, 2018

    • centroidize

      Public
      helper webapp for SCiLS export to METASPACE
      Apache License 2.0
      •0•1•0•0•Updated May 17, 2018May 17, 2018