How to generate simulated RNA-seq data

Question

[arash.mehrabi.zkz]

Hi!

My professor has asked me to generate simulated RNA-seq data. Preferably a dataset that contains expressed transposable elements (TEs). I am new to bioinformatics but have strong programming skills. I know that I should do it using Polyester, but it doesn't have strong documentation. Also, I couldn't find any tutorials online. Is there any tutorial that teaches generating simulated RNA-seq data step by step?

Thank you for your attention.

Answer 1

[GenoMax]

There are multiple read simulators available:
What Ngs Read Simulators Are Available For Paired-End Data?
NGS reads simulation

I suggest you look at ART and perhaps randomreads.sh from BBMap.