latent_factors_autoimmune

Repository for the manuscript:

Latent factor modelling of scRNA-seq data uncovers novel pathways dysregulated in cell subsets of autoimmune disease patients

Giovanni Palla* and Enrico Ferrero

Autoimmunity Transplantation and Inflammation Bioinformatics, Novartis Institutes for BioMedical Research, Novartis Campus, Basel 4056, Switzerland
*current address:Institute of Computational Biology, HelmholtzZentrum Muenchen, Munich, Germany

In the latentFactors_pipeline folder you can find the Snakemake pipeline to run the analysis. In the latentFactors_scripts folder you can find the scripts as well as conda environments required by the pipeline.