LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
Hello!
I used LTR_Retriver to identify multiple genomic LTRs, but I want to do panTE analysis now, but I'm running out of time. I wonder if there is any way to identify species-specific LTR families. We failed to split the subgenome using subphaser, so we could not use shuphaser for identification, but we split the subgenome using the method of tree building. What advice do you have for identifying species-specific LTR families?
oushujun
commented
1 year ago
Hello! I used LTR_Retriver to identify multiple genomic LTRs, but I want to do panTE analysis now, but I'm running out of time. I wonder if there is any way to identify species-specific LTR families. We failed to split the subgenome using subphaser, so we could not use shuphaser for identification, but we split the subgenome using the method of tree building. What advice do you have for identifying species-specific LTR families?