I was trying to run your pipeline but you have said that sleuthpaperanalysis must be utilized first to create simulations. Can you help in producing the simulations from sleuth paper analysis, as we are having issues running the pipeline to produce them?
The R code and (by proxy) the Snakefiles reference a variety of input directories and files which do not exist (such as finn_samples.txt), and of which we have no samples that we could imitate. Analyzing the code to determine the required format for these files appears to be quite an undertaking. Since you've managed to run these steps and have the experience we're lacking, could you share some insight on the exact nature of these files?
I was trying to run your pipeline but you have said that sleuthpaperanalysis must be utilized first to create simulations. Can you help in producing the simulations from sleuth paper analysis, as we are having issues running the pipeline to produce them?
The R code and (by proxy) the Snakefiles reference a variety of input directories and files which do not exist (such as finn_samples.txt), and of which we have no samples that we could imitate. Analyzing the code to determine the required format for these files appears to be quite an undertaking. Since you've managed to run these steps and have the experience we're lacking, could you share some insight on the exact nature of these files?