My question might be a duplicate, but what software would you recommend to simulate RNAseq reads (with different parameters like read length, PE/SE, error-rate, strandedness, etc), by using reference genome and annotations as input.
Google search and omicstools give many results, but I didn't find any soft so far fitting to my needs. ART looks good (but not specific to RNAseq), and I bet that there would be something in BBtools :)
Would appreciate any comments and suggestions. Thanks