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Dfam-consortium / RepeatModeler

De-Novo Repeat Discovery Tool
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About parameter "-LTRStruct" #124

Open kuangtianhui opened 3 years ago

kuangtianhui commented 3 years ago

I run the RepeatModeler without parameter "-LTRStruct" . Since this parameter appeared at this version... So I want to know that how big different between use or don't use this parameter? And I also want to make sure if I could use the results generated without parameter "-LTRStruct" as a input of RepeatMasker? Thanks!!!

jebrosen commented 3 years ago

-LTRStruct enables the optional LTR structural finder introduced in RepeatModeler2, described in more detail in "RepeatModeler2 for automated genomic discovery of transposable element families" (https://www.pnas.org/content/117/17/9451). Without this parameter, only the RepeatScout and RECON programs are run, like in previous versions of RepeatModeler.

The resulting output is in the same formats, and can be used as libraries for RepeatMasker whether or not -LTRStruct was used.

zuodabin commented 2 years ago

Hi ,I encounter same problem ,which without parameter "-LTRStruct" ,If I need to identify LTR later on, is there an easy way to remedy it without having to start all over again?