Haniffa Lab
Based in the Newcastle University Biosciences Institute, we apply disruptive techniques to understand how the immune system develops and maintains health
Newcastle upon Tyne
Pinned Repositories
FCA_bone_marrow
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).
FCA_fetal_skin
This repository contains the data processing and analysis scripts for fetal skin study.
FCA_liver
All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).
FCA_yolkSac
Repository containing all code for HCA yolk sac analysis
HCA_skin
HCA data analysis
scENTInEL
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.
scRNA-seq_analysis
Single cell RNA-seq analysis bundle
Single-cell-RNAseq-data-analysis-bundle
webatlas-app
An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.
webatlas-pipeline
A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
Haniffa Lab's Repositories
haniffalab/webatlas-pipeline
A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
haniffalab/FCA_liver
All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).
haniffalab/scRNA-seq_analysis
Single cell RNA-seq analysis bundle
haniffalab/FCA_bone_marrow
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).
haniffalab/HCA_skin
HCA data analysis
haniffalab/Single-cell-RNAseq-data-analysis-bundle
haniffalab/webatlas-app
An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.
haniffalab/FCA_yolkSac
Repository containing all code for HCA yolk sac analysis
haniffalab/FCA_fetal_skin
This repository contains the data processing and analysis scripts for fetal skin study.
haniffalab/scENTInEL
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.
haniffalab/sci-adifa
haniffalab/HL_open_source_hardware
Open source repository for hardware and associated software developed within the Haniffalab
haniffalab/strapi-collections
haniffalab/haniffalab.github.io
haniffalab/jekyll-cellatlas-io-collections
haniffalab/jekyll-hdca
haniffalab/cellatlas_io_www
haniffalab/covid_nasal_epithelium
haniffalab/HL_internships
Repo of student-led internship project details, code, results and discussions
haniffalab/jekyll-cellatlas-io-embryo
haniffalab/rse-training
haniffalab/sc-analysis-nf
pipeline to
haniffalab/SCC_project
SCC project scripts
haniffalab/squidpy
Spatial Single Cell Analysis in Python
haniffalab/strapi-api
haniffalab/vitessce
Vitessce is a visual integration tool for exploration of spatial single-cell experiments.