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SpatialTranscriptomicsResearch

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  1. st_pipeline st_pipeline Public

    Forked from jfnavarro/st_pipeline

    ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.

    Python 82 30

  2. st_spot_detector st_spot_detector Public

    A web tool to do automatic spots detections and positional adjustments for Spatial Transcriptomics Datasets.

    JavaScript 23 10

  3. std-nb std-nb Public

    Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018

    C++ 21 3

  4. st_viewer st_viewer Public

    Forked from jfnavarro/st_viewer

    A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets

    C++ 13 4

  5. std-poisson std-poisson Public

    Poisson regression for Spatial Transcriptomics data as described in Berglund et al. 2018

    C++ 6 1

  6. st_analysis st_analysis Public

    Forked from jfnavarro/st_analysis

    A toolkit for visualisation and analysis of Spatial Transcriptomics datasets

    Python 5 5

Repositories

Showing 10 of 13 repositories
  • taggd Public Forked from jfnavarro/taggd-temp

    Genetic barcode demultiplexing

    SpatialTranscriptomicsResearch/taggd’s past year of commit activity
    Python 1 BSD-3-Clause 8 0 0 Updated Feb 8, 2025
  • st_spot_detector Public

    A web tool to do automatic spots detections and positional adjustments for Spatial Transcriptomics Datasets.

    SpatialTranscriptomicsResearch/st_spot_detector’s past year of commit activity
    JavaScript 23 10 2 14 Updated Nov 17, 2022
  • st_spot_detector_singularity Public Forked from Alexander-Stuckey/st_aligner_singularity

    Singularity setup script for the ST Spot detector

    SpatialTranscriptomicsResearch/st_spot_detector_singularity’s past year of commit activity
    1 2 0 0 Updated Jul 8, 2021
  • st_analysis Public Forked from jfnavarro/st_analysis

    A toolkit for visualisation and analysis of Spatial Transcriptomics datasets

    SpatialTranscriptomicsResearch/st_analysis’s past year of commit activity
    Python 5 MIT 7 0 0 Updated Apr 13, 2021
  • st_viewer Public Forked from jfnavarro/st_viewer

    A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets

    SpatialTranscriptomicsResearch/st_viewer’s past year of commit activity
    C++ 13 14 0 0 Updated Apr 13, 2021
  • st_pipeline Public Forked from jfnavarro/st_pipeline

    ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.

    SpatialTranscriptomicsResearch/st_pipeline’s past year of commit activity
    Python 82 48 7 1 Updated Apr 13, 2021
  • TACA Public Forked from jfnavarro/TACA

    Tool for the Automation of Cleanup and Analyses

    SpatialTranscriptomicsResearch/TACA’s past year of commit activity
    Python 0 MIT 19 0 0 Updated Dec 27, 2019
  • transcriptomoscope Public

    Dimensionality reduction and Voronoi tesselation plotting code for spatial transcriptomics data

    SpatialTranscriptomicsResearch/transcriptomoscope’s past year of commit activity
    R 1 GPL-3.0 0 0 0 Updated Mar 20, 2019
  • std-nb Public

    Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018

    SpatialTranscriptomicsResearch/std-nb’s past year of commit activity
    C++ 21 GPL-3.0 3 1 0 Updated Nov 2, 2018
  • std-poisson Public

    Poisson regression for Spatial Transcriptomics data as described in Berglund et al. 2018

    SpatialTranscriptomicsResearch/std-poisson’s past year of commit activity
    C++ 6 GPL-3.0 1 2 0 Updated Aug 14, 2018
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