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@SpatialTranscriptomicsResearch SpatialTranscriptomicsResearch

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    13 repositories

    • taggd

      Public
      Genetic barcode demultiplexing
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •8•1•0•0•Updated Feb 8, 2025Feb 8, 2025

    • st_spot_detector

      Public
      A web tool to do automatic spots detections and positional adjustments for Spatial Transcriptomics Datasets.
      JavaScript
      •
      Other
      •10•25•2•14•Updated Nov 17, 2022Nov 17, 2022

    • st_spot_detector_singularity

      Public
      Singularity setup script for the ST Spot detector
      2•1•0•0•Updated Jul 8, 2021Jul 8, 2021

    • st_analysis

      Public
      A toolkit for visualisation and analysis of Spatial Transcriptomics datasets
      Python
      •
      MIT License
      •8•5•0•0•Updated Apr 13, 2021Apr 13, 2021

    • st_viewer

      Public
      A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
      C++
      •
      Other
      •14•15•0•0•Updated Apr 13, 2021Apr 13, 2021

    • st_pipeline

      Public
      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
      •
      Other
      •52•85•10•1•Updated Apr 13, 2021Apr 13, 2021

    • TACA

      Public
      Tool for the Automation of Cleanup and Analyses
      Python
      •
      MIT License
      •20•0•0•0•Updated Dec 27, 2019Dec 27, 2019

    • transcriptomoscope

      Public
      Dimensionality reduction and Voronoi tesselation plotting code for spatial transcriptomics data
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Mar 20, 2019Mar 20, 2019

    • std-nb

      Public
      Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
      C++
      •
      GNU General Public License v3.0
      •3•22•1•0•Updated Nov 2, 2018Nov 2, 2018

    • std-poisson

      Public
      Poisson regression for Spatial Transcriptomics data as described in Berglund et al. 2018
      C++
      •
      GNU General Public License v3.0
      •1•6•2•0•Updated Aug 14, 2018Aug 14, 2018

    • st_tissue_recognition

      Public
      A tool to create masks around the tissue area in a Spatial Transcriptomics' brightfield image
      C++
      •
      MIT License
      •3•1•0•0•Updated Nov 29, 2017Nov 29, 2017

    • st_api

      Public
      A RESTFul API to provide access to the Spatial Transcriptomics datasets stored in a database.
      Java
      •
      Other
      •1•0•0•0•Updated Sep 13, 2016Sep 13, 2016

    • st_admin

      Public
      A web based tool to administrate and create Spatial Transcriptomics datasets
      Java
      •
      Other
      •1•0•0•0•Updated Aug 4, 2016Aug 4, 2016