Sorry if my question sounds dumb,
I have installed the RM2 with singularity container and I have added the RepBase lib using your instruction. Then I ran RepeatModeler on a non-model fly to get the -families.fa file.
Now that I want to run the RepeatMasker using the same first fly genome, should I combine the RMasker Library (with RepBase) with the generated -families.fa file? or I should mask this genome only on the inbuilt RMasker library?
Sorry this part is honestly vague to me.
I understand that I have to use the newly built library for masking other genomes of the same species but I am confused on how to mask the first genome?
I also don't know how to merge the libraries (-families.fa + RMasker(RepBase included)).
Hi,
Sorry if my question sounds dumb, I have installed the RM2 with singularity container and I have added the RepBase lib using your instruction. Then I ran RepeatModeler on a non-model fly to get the-families.fa file.
Now that I want to run the RepeatMasker using the same first fly genome, should I combine the RMasker Library (with RepBase) with the generated-families.fa file? or I should mask this genome only on the inbuilt RMasker library?
Sorry this part is honestly vague to me.
I understand that I have to use the newly built library for masking other genomes of the same species but I am confused on how to mask the first genome?
I also don't know how to merge the libraries (-families.fa + RMasker(RepBase included)).
Thanks