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    27 repositories

    • webatlas-pipeline

      Public
      A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
      Python
      •
      MIT License
      •9•44•11•4•Updated Nov 14, 2024Nov 14, 2024

    • jekyll-cellatlas-io-collections

      Public
      CSS
      •1•0•0•0•Updated Nov 14, 2024Nov 14, 2024

    • solosis

      Public
      A plug and play pipeline for the lab
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•12•2•Updated Nov 13, 2024Nov 13, 2024

    • jekyll-hdca

      Public
      CSS
      •0•0•9•0•Updated Nov 12, 2024Nov 12, 2024

    • strapi-api

      Public
      JavaScript
      •0•0•0•1•Updated Oct 16, 2024Oct 16, 2024

    • sci-adifa

      Public
      JavaScript
      •
      MIT License
      •2•2•6•0•Updated Sep 13, 2024Sep 13, 2024

    • FCA_fetal_skin

      Public
      This repository contains the data processing and analysis scripts for fetal skin study.
      Jupyter Notebook
      •
      GNU Affero General Public License v3.0
      •1•3•0•0•Updated Sep 13, 2024Sep 13, 2024

    • haniffalab.github.io

      Public
      HTML
      •2•0•6•0•Updated Sep 6, 2024Sep 6, 2024

    • scENTInEL

      Public
      Scentinel is a probabilistic ensemble framework designed for mapping large single-cell (sc) multi-omic datasets using either transductive or inductive transfer learning. The framework operates on pre-integrated low-dimensional latent embeddings and offers multiple algorithmic modalities.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•1•1•Updated Sep 6, 2024Sep 6, 2024

    • sc-analysis-nf

      Public
      pipeline to
      Python
      •0•0•1•0•Updated Mar 12, 2024Mar 12, 2024

    • strapi-collections

      Public
      JavaScript
      •0•1•0•0•Updated Nov 14, 2023Nov 14, 2023

    • webatlas-app

      Public
      An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.
      JavaScript
      •
      MIT License
      •3•13•2•1•Updated Sep 26, 2023Sep 26, 2023

    • FCA_yolkSac

      Public
      Repository containing all code for HCA yolk sac analysis
      Jupyter Notebook
      •
      Other
      •2•4•0•0•Updated Jul 13, 2023Jul 13, 2023

    • rse-training

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jun 29, 2023Jun 29, 2023

    • jekyll-cellatlas-io-embryo

      Public
      CSS
      •0•0•0•0•Updated Sep 14, 2022Sep 14, 2022

    • vitessce

      Public
      Vitessce is a visual integration tool for exploration of spatial single-cell experiments.
      JavaScript
      •
      MIT License
      •43•0•0•0•Updated May 18, 2022May 18, 2022

    • Single-cell-RNAseq-data-analysis-bundle

      Public
      R
      •
      MIT License
      •10•12•0•0•Updated May 4, 2022May 4, 2022

    • FCA_bone_marrow

      Public
      This repository contains all analysis scripts used to explore single cell datasets for: Jardine and Webb et al., 2021, "Blood and immune development in human fetal bone marrow and in Down syndrome" (Nature, 2021).
      Jupyter Notebook
      •
      MIT License
      •6•14•0•0•Updated May 4, 2022May 4, 2022

    • HL_open_source_hardware

      Public
      Open source repository for hardware and associated software developed within the Haniffalab
      G-code
      •
      MIT License
      •1•1•0•0•Updated May 4, 2022May 4, 2022

    • cellatlas_io_www

      Public
      JavaScript
      •
      MIT License
      •0•0•0•0•Updated Nov 18, 2021Nov 18, 2021

    • covid_nasal_epithelium

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 3, 2021Sep 3, 2021

    • HL_internships

      Public
      Repo of student-led internship project details, code, results and discussions
      0•0•0•0•Updated Sep 3, 2021Sep 3, 2021

    • HCA_skin

      Public
      HCA data analysis
      Jupyter Notebook
      •3•15•1•0•Updated Mar 30, 2021Mar 30, 2021

    • squidpy

      Public
      Spatial Single Cell Analysis in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •82•0•0•0•Updated Mar 5, 2021Mar 5, 2021

    • SCC_project

      Public
      SCC project scripts
      0•0•0•0•Updated Feb 8, 2021Feb 8, 2021

    • FCA_liver

      Public
      All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).
      R
      •16•38•0•0•Updated May 15, 2020May 15, 2020

    • scRNA-seq_analysis

      Public
      Single cell RNA-seq analysis bundle
      R
      •10•33•0•0•Updated Sep 13, 2019Sep 13, 2019