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    17 repositories

    • SpaceMarkers

      Public
      An R/Bioconductor software tool to identify genes associated with latent space interactions in spatial transcriptomics.
      HTML
      •
      Other
      •4•4•10•1•Updated Nov 22, 2024Nov 22, 2024

    • data-and-scripts

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Oct 4, 2024Oct 4, 2024

    • webatlas-pipeline

      Public
      A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
      Python
      •
      MIT License
      •10•0•0•0•Updated Aug 15, 2024Aug 15, 2024

    • SINGE

      Public
      Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data
      MATLAB
      •
      MIT License
      •6•0•0•0•Updated Jun 14, 2024Jun 14, 2024

    • btc-spatial-pipelines

      Public
      Nextflow spatial pipelines (for Spatial Transcriptomics, IMC, etc.)
      Groovy
      •
      MIT License
      •1•0•0•0•Updated May 7, 2024May 7, 2024

    • CoGAPS

      Public
      Bayesian MCMC matrix factorization algorithm
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •17•0•0•0•Updated Apr 23, 2024Apr 23, 2024

    • nf_pymc

      Public
      Bayesian Modeling and Probabilistic Programming in Python
      Python
      •
      Other
      •2k•0•0•0•Updated Feb 13, 2024Feb 13, 2024

    • configs

      Public
      Config files used to define parameters specific to compute environments at different Institutions
      Nextflow
      •
      MIT License
      •276•0•0•0•Updated Nov 21, 2023Nov 21, 2023

    • py-utils

      Public
      0•0•0•0•Updated Oct 9, 2023Oct 9, 2023

    • SpaceMarkers-paper

      Public
      Scripts used for data analaysis in the manuscript
      Jupyter Notebook
      •1•1•1•0•Updated Oct 4, 2023Oct 4, 2023

    • btc-sc-modules

      Public
      Nextflow
      •5•0•0•0•Updated Sep 7, 2023Sep 7, 2023

    • btc-sc-notebooks

      Public
      Scripts and Notebooks related to the Single-cell pipeline
      R
      •2•0•0•0•Updated Sep 3, 2023Sep 3, 2023

    • btc-scrna-pipeline

      Public
      A Nextflow pipeline for single-cell RNA-Seq dataset
      Nextflow
      •
      MIT License
      •6•0•0•0•Updated Sep 1, 2023Sep 1, 2023

    • btc-sc-containers

      Public
      A repository containing all Dockerfile related to the single-cell pipeline
      Dockerfile
      •3•0•0•0•Updated Jul 31, 2023Jul 31, 2023

    • btc-sc-mvp

      Public
      A Nextflow pipeline to process single-cell datasets
      Nextflow
      •3•0•0•0•Updated May 9, 2023May 9, 2023

    • nf-tower

      Public
      Nextflow Tower system
      Groovy
      •
      Mozilla Public License 2.0
      •53•0•0•0•Updated Feb 2, 2023Feb 2, 2023

    • prgpmf

      Public
      Poisson-randomized gamma Poisson matrix factorization
      Python
      •3•0•0•0•Updated Feb 14, 2020Feb 14, 2020