Split GRanges to GRangeList based on mcols value
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@unamourdeswann-12423
Last seen 3.2 years ago
France

I have a GRanges with a factor in mcols

gr <- GRanges(seqnames = c("1", "2"), IRanges(start=c(1000, 2000), width=100), strand = c("+", "+"), category = c("A", "B"))

I would like to split gr based on category, in order to have a GRangesList that would be similar to:

grl <- GRangesList(A=gr[1], B=gr[2])

Is there a simple/best way to do it?

Thank you very much to everyone!

granges • 1.6k views
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@michael-lawrence-3846
Last seen 2.9 years ago
United States

You could just use split(), like

split(gr, ~ category)
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I did know `split`, but only in combination with another GRL (or seqnames). Glad to know `split` + `~`, thanks!
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That's a convenience; of course `split(gr, gr$category)` is also possible.
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Cool! Did not know either.
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