Hi Kasper,

Thank you for replying back. I had tried this earlier, but what I get is not
what I expected. I sort of wanted to "merge" the ranges for each "chr"
value. So I want to ranges in Chr1 to be merged separately from Chr2 and so
on. What I Get is:

> abc.chr=c("chr1","chr1","chr1","chr2","chr3","chr4")
> abc.start=c(101,704,310,582,422,40)
> abc.end = c(283,710,450,635,548,128)
>
> def.chr=c("chr1","chr1","chr1","chr2","chr3","chr5")
> def.start=c(90,600,306,650,315,140)
> def.end=c(200,650,384,690,697,228)
>
> I1 <- IRanges(start = abc.start, end = abc.end, names=abc.chr)
> I2<- IRanges(start = def.start, end = def.end, names=def.chr)
>
> I1
IRanges of length 6
    start end width names
[1]   101 283   183  chr1
[2]   704 710     7  chr1
[3]   310 450   141  chr1
[4]   582 635    54  chr2
[5]   422 548   127  chr3
[6]    40 128    89  chr4
> I2
IRanges of length 6
    start end width names
[1]    90 200   111  chr1
[2]   600 650    51  chr1
[3]   306 384    79  chr1
[4]   650 690    41  chr2
[5]   315 697   383  chr3
[6]   140 228    89  chr5
>
> xyz<- reduce(c(I1,I2))
> xyz
IRanges of length 3
    start end width
[1]    40 283   244
[2]   306 697   392
[3]   704 710     7


What I would like is :
xyz
IRanges of length 7
    start end width names
[1]    90 283   194  chr1
[2]   600 710    111  chr1
[3]   306 450    145  chr1
[4]   582 690    108  chr2
[5]   315 697   383  chr3
[6]    40 128    89  chr4
[7]   140 228    89  chr5


This doesn't take the "names" into account while reducing / merging. Is
there a way to have that taken into account while merging?

Thanks again for your help.

-vishal

On Fri, Nov 12, 2010 at 2:55 PM, Kasper Daniel Hansen <
kasperdanielhansen@gmail.com> wrote:

> ir1, ir2 are your IRanges
>
> do
>  reduce(c(ir1, ir2))
>
> Kasper
>
> On Fri, Nov 12, 2010 at 2:49 PM, Vishal Thapar <vishalthapar@gmail.com>
> wrote:
> > Hi All,
> >
> > I have a question about how to merge / have a union of 2 RangeData
> objects
> > Say I have a rangeData1
> > head(rangeData1)
> > RangedData with 6 rows and 0 value columns across 25 spaces
> >        space             ranges |
> >  <character>          <IRanges> |
> > 1           chr1 [    101,     283] |
> > 2           chr1 [    704,     710] |
> > 3           chr1 [    310,     450] |
> > 4           chr2 [    582,     635] |
> > 5           chr3 [    422,     548] |
> > 6           chr4 [      40,  128] |
> >
> > and another
> >
> > head(rangeData2)
> > RangedData with 6 rows and 0 value columns across 25 spaces
> >        space             ranges |
> >  <character>          <IRanges> |
> > 1           chr1 [    90,     200] |
> > 2           chr1 [    600,  650] |
> > 3           chr1 [    306,  384] |
> > 4           chr2 [    650,   690] |
> > 5           chr3 [    315,   697] |
> > 6           chr5 [    140,   228] |
> >
> > Would it be possible to merge these two so that I get something like
> this:
> > RangeData3
> > RangedData with 7 rows and 0 value columns across 25 spaces
> >        space             ranges |
> >  <character>          <IRanges> |
> > 1           chr1 [    90,     283] |
> > 2           chr1 [    600,  710] |
> > 3           chr1 [    306,  450] |
> > 4           chr2 [    582,   690] |
> > 5           chr3 [    315,   697] |
> > 6           chr4 [      40,  128] |
> > 7           chr5 [    140,   228] |
> >
> >
> > Thanks for the help!
> >
> > Sincerely,
> >
> > Vishal
> >
> >        [[alternative HTML version deleted]]
> >
> > _______________________________________________
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> >
>

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