This is not directly related to any particular analysis. I have been doing my own analysis for rna seq data for the last one year, completely learning from here and there. Until now, I am confident and can do my own analysis. I always use Rstudio to write and run the scripts for my data analysis. But one thing I feel lacking is, not being able to make the r script automatized. Like, just to be able to run
Rscript my_script.R in bash to execute and get the results. For every data sets, I have to manually change i.e. some variable names, or change some simple data table subsetting parameters or change the figure output names or change the working directory path etc. Etc. I am kind of frustrated and it drives the motivation down that everytime I have to make a copy of my old script, manually change stuffs inside, then run it. Is this always the case everywhere? I am sure it's not! The place where I come from, there's nobody to help me or teach me effective R programming to make it really automatized. I would really appreciate if you can give me some tips and tricks or some resources online to follow through to make Automatized scripts that will run seamlessly.