I have some single Cell data obtained from a ddseq / Illumina. I would prefer to process this data on my linux server instead of base space. (Base space costs money). Any alternatives instead of using SureCell RNA Single-Cell App in Basespace ? I looked around and couldn’t find anything. Any suggestions are appreciated . Thanks -Rich
There is a SureCell RNA Data Analysis tech note that describes the BaseSpace App workflow with some detail:
Hopefully that can help you make some progress if you plan to implement your own pipeline. Alternately, I suggest reach out to Illumina Tech Support (firstname.lastname@example.org) or your lab's dedicated Illumina Field Application Scientist for some suggestions on how to analyze your data without using BaseSpace Sequence Hub.
Source - I work at Illumina :)