mitology Workflow: scRNAseq and ST

This repository contains the scripts for data processing, enrichment computation and figure generation on single-cell (SC) and spatial transcriptomics (ST) data with mitology.

A single .Rmd file is provided for each dataset analysis.

Required Packages

The mitology package can be installed from Bioconductor:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("mitology")

Further, to run the workflows, the batchelor, GEOquery, graphite, GSVA, Matrix, rhdf5, scater, scran, scuttle, SingleCellExperiment, SpatialExperiment R packages are required.

Documentation and Contacts

Further details on how to use mitology are available in the vignette, that includes examples and documentation.

For any problems in using mitology, please write to stefania.pirrotta@unipd.it.