there are various approaches.  the most immediately relevant packages are
the
SNPlocs.* packages from the annotation/metadata package set.

if you do library(SNPlocs.Hsapiens.dbSNP.20071016) [a more recent
image is available with a different name, last component beginning 2008],
you can then do

> c1 = getSNPlocs("chr1")
> c1[1:10,]
   RefSNP_id alleles_as_ambig    loc
1    4109793                K 115261
2    3926102                M 118514
3    3926103                Y 118548
4    3926104                K 118592
5    3926105                Y 118661
6    4081096                Y 161648
7   28855133                S 221411
8   28828438                K 221413
9    9730150                R 222312
10   3936964                Y 541148

some programming can be used to get indices of SNP for which
loc lies in your regions

On Thu, Jun 4, 2009 at 6:13 PM, Kay Jaja <kjaja27@yahoo.com> wrote:

> Hi All,
>
> I have a list of regions on the genome and I am looking  to find the list
> of SNPs in each region. Is there an R package that can help me to do that.
>
> Thanks for the Help
>
>
>
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>
>
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-- 
Vincent Carey, PhD
Biostatistics, Channing Lab
617 525 2265

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