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@alexandrovteam Tools developed by the Alexandrov Team, EMBL / UCSD

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    29 repositories

    • pyimzML

      Public
      A parser to read .imzML files with python
      Python
      •
      Apache License 2.0
      •19•32•2•1•Updated Nov 4, 2024Nov 4, 2024

    • SpaceM

      Public
      Python
      •
      Apache License 2.0
      •5•11•0•4•Updated Sep 13, 2024Sep 13, 2024

    • metaspace-ml-context-explorer

      Public
      METASPACE-ML Context Explorer
      R
      •
      MIT License
      •0•1•0•0•Updated Sep 4, 2024Sep 4, 2024

    • S2IsoMEr

      Public
      Spatial and Single cell Isomeric Metabolite enrichment in R
      R
      •
      Other
      •1•0•0•0•Updated Aug 27, 2024Aug 27, 2024

    • predicting-APMALDI-response

      Public
      Predict AP-MALDI Response using Machine Learning
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Apr 7, 2023Apr 7, 2023

    • curatr

      Public
      JavaScript
      •
      Apache License 2.0
      •3•14•2•8•Updated Dec 27, 2022Dec 27, 2022

    • ims-direct-control

      Public
      Jupyter Notebook
      •
      MIT License
      •1•3•1•0•Updated Jul 4, 2022Jul 4, 2022

    • microbial-metaspace

      Public
      Python
      •0•0•0•0•Updated Apr 20, 2021Apr 20, 2021

    • DeepCycle

      Public
      code for DeepCycle paper
      Jupyter Notebook
      •3•9•0•0•Updated Oct 7, 2020Oct 7, 2020

    • pyImagingMSpec

      Public
      tools for manipulating imaging mass spectrometry data in python
      Jupyter Notebook
      •
      Apache License 2.0
      •5•5•1•0•Updated Jul 5, 2018Jul 5, 2018

    • recalibration

      Public
      Python
      •0•0•0•0•Updated May 14, 2018May 14, 2018

    • pyMSpec

      Public
      tools for manipulating mass spectra in python
      Python
      •
      Apache License 2.0
      •6•6•0•0•Updated Apr 20, 2018Apr 20, 2018

    • cpyImagingMSpec

      Public
      Python
      •1•0•0•1•Updated Nov 23, 2017Nov 23, 2017

    • ims-cpp

      Public
      Tools for spatial metabolomics
      C++
      •
      Apache License 2.0
      •1•4•0•0•Updated Nov 22, 2017Nov 22, 2017

    • cpyMSpec

      Public
      Fast high-resolution isotope pattern calculator
      Python
      •
      Apache License 2.0
      •2•6•0•0•Updated Aug 31, 2017Aug 31, 2017

    • MassFuser

      Public
      knimepandasmass-spectrometrypython2lc-ms
      Apache License 2.0
      •2•2•0•1•Updated Aug 3, 2017Aug 3, 2017

    • pysparkling

      Public
      A pure Python implementation of Apache Spark's RDD and DStream interfaces.
      Python
      •
      MIT License
      •45•0•0•0•Updated Jun 21, 2017Jun 21, 2017

    • wheel_builders

      Public
      Helper scripts for building cross-platform CFFI-based Python packages
      Shell
      •0•0•0•0•Updated May 29, 2017May 29, 2017

    • MRMConvert

      Public
      Workflow for generating regular LC-MS data from the ones acquired in MRM mode
      pythonknimemass-spectrometrylc-msdata-conversionmrm
      Apache License 2.0
      •0•0•0•0•Updated Apr 1, 2017Apr 1, 2017

    • mzml2isa

      Public
      Parser to get meta information from mzML file and parse relevant information to a ISA-Tab structure
      Python
      •6•0•0•0•Updated Mar 1, 2017Mar 1, 2017

    • sm-networks

      Public
      Dataset/annotation networks
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Jan 11, 2017Jan 11, 2017

    • pySM

      Public
      Reference pipeline for FDR-controlled metabolite annotation for imaging mass spectrometry
      Jupyter Notebook
      •
      Apache License 2.0
      •6•17•0•0•Updated Nov 15, 2016Nov 15, 2016

    • PFG

      Public
      Parallel Formula Generator
      C++
      •
      Other
      •2•0•0•0•Updated Jul 13, 2016Jul 13, 2016

    • pyTLC

      Public
      tools for processing imaging of tlc plates
      Python
      •
      Apache License 2.0
      •1•0•0•0•Updated May 2, 2016May 2, 2016

    • pyims_simulate_evaluate

      Public
      python module for simulating imaging mass spectrometry data and evaluating subsequent result
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 31, 2016Mar 31, 2016

    • precomputed_isotope_patterns

      Public
      0•0•0•0•Updated Mar 21, 2016Mar 21, 2016

    • spatial-corals

      Public
      Scientific study on spatial statistical analysis of Growth Anomaly lesions on coral colonies.
      MATLAB
      •1•1•0•0•Updated Mar 19, 2016Mar 19, 2016

    • probModel

      Public
      Python
      •0•0•0•0•Updated Dec 5, 2015Dec 5, 2015

    • IMS_quality

      Public
      Scientific study on the quality of MALDI imaging mass spectrometry data.
      MATLAB
      •3•2•0•0•Updated Mar 16, 2015Mar 16, 2015