Dear Tom , very cool and easy to understand and learn tutorials! Thank you so much for your generosity . Might you be willing to make a video to explain how one can customize the ref genome /annotation e.g. adding a GFP or focusing on specific chromosome or reducing the analysis to mitochondrial transcripts? there are no videos that teach such a valuable skill!
You will need to make a fasta file with GFP sequence, and create a GTF file. I did something like this: divingintogeneticsandgenomics.com/post/cellranger-mk-reference-with-transgenes/
Hello Tom, thanks for such a wonderful tutorial. Currently, i have worked how to do the single cell RNA-Seq starting from the .hf file format from 10x genomics. i do not know how to retrieve the data from GEO Datasets for single cell rna seq analysis and to which file format we will convert this data first for scRNA-Sed analysis
