Published July 2, 2024 | Version 1.0.0
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The Hitchhiker's Guide to scRNA-seq course

Authors/Creators

  • 1. ROR icon Turku Centre for Biotechnology
  • 2. ROR icon University of Turku

Description

This repository comprises the intermediate results, data, and the respective script to create it, to be use on the second day of the course The Hitchhiker's Guide to scRNA-seq (08-12/07/2024, iMM, Lisbon, Portugal), focused on integration. 

File description: 

  • data: 
    • pbmcref.rds: a Seurat R object of a reference of PBMCs retrieved from the R package SeuratData (v.0.2.2.9001)
    • pbmc3k_panc8.rds: a Seurat R object of two data sets - 3k human PBMCs from 10X Genomics and pancreatic islets from indrop1 - retrieved from SeuratData package (v.0.2.2.9001) 
    • jurkat.rds: a Seurat R object comprising three data sets - Jurkat, HEK293T and Jurkat:HEK293T (50:50) - retrieved from 10X genomics and published by Zheng et al., 2017
    • ifnb.rds: a Seurat R object of two human PBMCs data sets - resting/control and interferon-stimulated - retrieved from the R package SeuratData (v.0.2.2.9001)
    • covid.rds: a Seurat R object of a COVID-19 PBMCs data set from Guo et al., 2020 retrieved from cziscience
  • 01_create_datasets.R: R script used to retrieve and parse all the Seurat R objects mentioned above
  • results.zip: compressed folder with intermediate results used for the hands-on exercises

Files

results.zip

Files (733.7 MB)

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