Is there an easy way to do pos(x) <- pos(x) + 1 for a GPos object ?
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@charles-plessy-7857
Last seen 13 months ago
Japan

Hello,

I have some single-nucleotide positions in a GPos object, and I would like to move them of one base. But pos<- does not seem to be implemented and shift fail…

p <- GPos("chr1:10:+", stitch = FALSE)

pos(p) <- pos(p) + 1
    Error in pos(p) <- pos(p) + 1 : impossible de trouver la fonction "pos<-"

shift(p, 1)
    Error in (function (classes, fdef, mtable)  : 
      unable to find an inherited method for function ‘update_ranges’ for signature ‘"UnstitchedIPos"’

edit: I suppose there is some kind of hadean punishment for something like p@ranges@pos <- p@ranges@pos + 1L ?

GenomicRanges GPos • 841 views
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Entering edit mode
ATpoint ★ 4.5k
@atpoint-13662
Last seen 21 minutes ago
Germany
p2 <- GPos(seqnames = seqnames(p), pos = start(p)+1)
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