how to read SNP CEL files without matched genetype call files (TXT file)

[xiaokuan]

Hi Cheng,

First, thank you for providing such a powerful software. I was trying
to do some snp array analysis (copy number variation). The platform is
affy human 500k. I tried to use some public domain data sets. However,
I can only find downloadable CEL files without matched TXT files.
(hapmap affy 500k, http://hapmap.ncbi.nlm.nih.gov/downloads/raw_data/affy500k/)

How should I read these CEL files to perform snp analysis without
their match TXT files (genotype calls)?

Thank you.

Xiaokuan

[Cheng Li]

Xiaokuan,

Please see the note [V5/29/06+] here:

http://biosun1.harvard.edu/complab/dchip/snp.htm#read_data

Thank you.

Cheng

http://www.biostat.harvard.edu/~cli/

Xiaokuan

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