Hi, I am new to single-cell sequencing analysis. I performed 10x scRNA-seq and found the only suitable research paper on single-cell sequencing of the same tissue site. But their single-cell sequencing uses MARS-seq. I want to use their already annotated datasets as reference datasets for my cluster annotation.
For 10x scRNA-seq analysis, I was able to generate Seurat objects from other 10x scRNA-seq datasets and use them as reference files, based on gene expression signatures for each cell type. But I don't know anything about MARS-seq analysis and I don't know how to finally convert a MARS-seq dataset into a Seurat object.
Indeed, someone has successfully completed the conversion from 10x scRNA-seq datasets to MARS-seq annotation reference file, that is, using the published 10x scRNA-seq dataset as a reference to annotate their own MARS-seq datasets. But I don't know if the reverse is possible. Could someone give me some advice?
Many thanks.
Can you elaborate? So you have a reference dataset, and I guess they identified celltypes, is that correct? And now you want to use this dataset to annotate your data? Did they publish marker genes per celltype? If so I would probably use something like
SingleRto do reference-based annotation of my data rather than trying to integrate the two datasets. Please describe better what exactly the problem is that you have and which question you want to answer.