Dear Dr.MacDonald,

Thank you very much for your reply,

I generated new probeset names by doing custom mapping of probes to Genome.The output file is in csv format i need that csv file converted to cdf.Is this possible  through
 'makecdfenv' package ? otherwise if possible please provide me any kind of information to do it.

I'm displaying few rows of my file to be clear.

 
 
 
 
  Probe Set Name
  Probe X
  Probe Y
  Probe Interrogation Position
  Probe Sequence
  Target Strandedness
  Alignment
  Chromosome
  Transcript
  exon
  NewProbe
  Indication
 
 
  1007_s_at:718:317;
  718
  317
  3330
  CACCCAGCTGGTCCTGTGGATGGGA
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 
 
  1007_s_at:1105:483;
  1105
  483
  3443
  GCCCCACTGGACAACACTGATTCCT
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 
 
  1007_s_at:584:901;
  584
  901
  3512
  TGGACCCCACTGGCTGAGAATCTGG
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 
 
  1007_s_at:192:205;
  192
  205
  3563
  AAATGTTTCCTTGTGCCTGCTCCTG
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 
 
  1007_s_at:844:979;
  844
  979
  3570
  TCCTTGTGCCTGCTCCTGTACTTGT
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 
 
  1007_s_at:537:971;
  537
  971
  3576
  TGCCTGCTCCTGTACTTGTCCTCAG
  Antisense
  1
  6
  uc003nrv.1
  exon16
   chr6probe447
  s
 


Thanks and Regards
Naresh

--- On Fri, 17/7/09, James W. MacDonald <jmacdon@med.umich.edu> wrote:

From: James W. MacDonald <jmacdon@med.umich.edu>
Subject: Re: [BioC] Creating CDF
To: "naresh kumar" <naresh4836@yahoo.co.in>
Cc: bioconductor@stat.math.ethz.ch
Date: Friday, 17 July, 2009, 2:26 AM

Hi Naresh,

naresh kumar wrote:
> Dear mailing list,
> 
> I got trouble in creating custom cdf in bio conductor.Could any one suggest me one tool or source which creates CDF. 

Assuming that you want a cdf package for a custom CDF (where you actually have the CDF from Affy), you want the makecdfenv package.

Best,

Jim


> 
> 
> Thanks for your help in advance
> Naresh
> 
> 
> 
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-- James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
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