I am currently running a programs that requires a transposable elements annotation in GTF format. For this, the repeat masker tables from UCSC are used. I am using a new assembly that has not repeat masker table available yet, so I am running repeat masker on the entire genome (Rhesus macaque).
Does anyone that have done this before could tell me about how long it can take? I am running this with the "slow" option.
Thank you, CAnna