More with already demultiplexed data
Hi! I am also working with already demultiplexed data and wanted to ask about Celine's response to Jason's question here:
Part of Celine's response is that "You can merge them (the demultiplexed reads) with obi cat (just annotate the samples before)".
Could you provide an example of how obi cat is used? I've looked through tutorials but not found one. Would we use obi cat at the very beginning of the pipeline (before even importing the reads) and concatenate all the R1 files together and all the R2 files together?
Could you also clarify what you mean by "annotate the samples before"? Is this something you would still do with ngsfilter? I'm confused regarding how the different steps in the pipeline would be tied together...
Many thanks,
Jacqueline Doyle