I’m analysing multiple data sets belonging to different bio-projects (The goal is to do Taxanomic assignment) and therefore I need to automate my workflow. I’m stuck at the denoising step of DADA2 where the parameters for “trun length” are passed from the interactive quality plot that is generated at the demultiplexing step.
Is there a way to pass on the values for the parameters in the denoising step without manually interpreting the interactive quality plot?
Any advice is highly appreciated!
Thanks in advance!