Nanoseq not pulling Deseq2 and Dexseq

[AnunayS]

The entire processes are run when running through docker profile.

But somehow the pipeline is not performing Deseq2 and Dexseq analysis.

I tried all the possible combinations from the protocol designer but still no luck.

Can this happen because of skipping the basecalling step, because basecalling has already been done from the minknow and it will take unnecessary time if I perform basecalling in the pipeline.

Please let me know what can changes can I do if i want to make the pipeline run deseq2 and deseq on my RNA sequenced samples.

Thank you.