How to generate .BED file from Partek GS using SNP6 copy number array data?

Question

[shangqianwang]

Hi everyone Recently we did several of our cell lines for SNP6 affymetrix CNA. We want to visualize in IGV to distinguish which cell line is not derived from the previous organ or obviously different from the other cell lines. How can we generate .BED file from Partek GS? Do I need to use the segmentation analysis spreadsheet?

Answer 1

[Partek Technical Support]

Do you want to generate one bed file per sample? Every Partek spreadsheet with genomic coordinates can be exported as a .bed file. Please contact [e-mail] to provide more detailed information, or call [phone]. We will be happy to have a one-on-one webmeeting to show you how to do this.

[shangqianwang]

I am sorry, my mistype. It should be the .seg file to import into the IGV. I called the technical support, they said don't know.