search

Dfam-consortium / RepeatModeler

De-Novo Repeat Discovery Tool
Other
189 stars 22 forks source link

Substitution matrix #182

Closed mylena-s closed 1 year ago

mylena-s commented 2 years ago

What do you want to know? Hello. Ive been testing the curation guidelines detailed in Storer et al. 2021. Acording to the paper and the script alignAndCallConsensus.pl help, the folder Matrices should contain matrices (14-25%) for higher CG contents (37-53%). Where could I find the alternative matrices?

Helpful context The genome that I am currently working on has a higher CG% than the human genome, so I was hoping to try alternative matrices for the consensus refinement..

Thanks!

mylena-s commented 1 year ago

What do you want to know? Hello. Ive been testing the curation guidelines detailed in Storer et al. 2021. Acording to the paper and the script alignAndCallConsensus.pl help, the folder Matrices should contain matrices (14-25%) for higher CG contents (37-53%). Where could I find the alternative matrices?

Helpful context The genome that I am currently working on has a higher CG% than the human genome, so I was hoping to try alternative matrices for the consensus refinement..

Thanks!

I found the matrices for Crossmatch engine. I was trying to find them for RMblast in the ncbi/nt folder.