[BioC] repeat mask for mm10?

[Janet Young]

Hi there,

I'm hoping I can add an easy item to your to-do list, bioc folks?   It looks like the BSgenome.Mmusculus.UCSC.mm10 package does not have a RepeatMasker mask at the moment - that would be really useful, to me at least. (I have version BSgenome.Mmusculus.UCSC.mm10_1.3.19)

library(BSgenome.Mmusculus.UCSC.mm10)
Mmusculus[["chr1"]]
  195471971-letter "MaskedDNAString" instance (# for masking)
seq: ####################################...####################################
masks:
  maskedwidth maskedratio active names                             desc
1     3562779  0.01822655   TRUE AGAPS                    assembly gaps
2           0  0.00000000   TRUE   AMB intra-contig ambiguities (empty)
all masks together:
  maskedwidth maskedratio
      3562779  0.01822655


thanks,

Janet