Post Processing of 10xscRNAseq *.h5 files in Seurat

This pipeline comprised of reading 10x h5 files to annotation using SingleR including Cell cycle sorting.

Make sure you have .h5 files inside a folder called data/

nextflow -log logs/seurat.nf run nf_run.nf -c nextflow.config --with-report scrnaseq_seurat.html

You can specify continer image (docker) in the nextflow.config file

apptainer pull  --name pritampkp15-scrna-seurat-analysis.img  docker://pritampkp15/scrna-seurat-analysis