factorFootprints 'seqnames' issue

[mmilevskiy]

Hi @jianhong

I am having an issue with the factorFootprints coding. I can run everything up to this point fine, but when I try to run this through, I get the following error. Our bioinformatics team have looked into it but can't figure it out. Any thoughts you have would be much appreciated.

Thanks,

library(BSgenome.Mmusculus.UCSC.mm10) library(MotifDb) CTCF <- query(MotifDb, c("CTCF")) CTCF <- as.list(CTCF) sigs <- factorFootprints(shiftedBamfile, pfm=CTCF[[1]], genome=genome, min.score="90%", seqlev=seqlev, upstream=100, downstream=100) Error in (function (classes, fdef, mtable) : unable to find an inherited method for function 'seqnames' for signature '"NULL"'