single cell RNA-seq 10X genomics

Question

[rob.costa1234]

I am getting some single cell RNA-seq data for different time points. Is there a standard work flow reported for such analysis? I know there are various packages for downstream analysis of scRNA like moncol but do we process 1X data in regular RNA seq or there are special preprocessing steps involved. Thanks

[GenoMax]

You should use CellRanger if you have access to raw data.

[Javad]

This paper is a good start to understand differences between single cell rna seq and bulk rna seq analysis.

Stegle, Oliver, Sarah A. Teichmann, and John C. Marioni. "Computational and analytical challenges in single-cell transcriptomics." Nature Reviews Genetics 16.3 (2015): 133-145.

[Micheal_Xu]

just wondering, can we use single cell library prep(e.g., from 10x genomics) for bulkRNA seq?