haniffalab/webatlas-pipeline

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Python
License
MIT License
Created over 2 years ago
Updated about 1 month ago

haniffalab/webatlas-pipeline

haniffalab

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A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas

FCA_liver

All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).

scRNA-seq_analysis

Single cell RNA-seq analysis bundle

HCA_skin

HCA data analysis

Jupyter Notebook

Single-cell-RNAseq-data-analysis-bundle

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).

Jupyter Notebook

webatlas-app

An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.

FCA_yolkSac

Repository containing all code for HCA yolk sac analysis

Jupyter Notebook

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.

Jupyter Notebook

sci-adifa

HL_open_source_hardware

Open source repository for hardware and associated software developed within the Haniffalab

FCA_fetal_skin

This repository contains the data processing and analysis scripts for fetal skin study.

Jupyter Notebook

strapi-collections