Get bedgraph file from CEL affymetrix file

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9.8 years ago

flyamer ▴ 60

Hi! I need to get a bed(graph) (or wig) file from some affymetrix CEL files from GEO (GSE28728). I can't find any easy way for this, although it seems like it should be a very common thing to do. I'm really not familiar with microarray analysis though. Maybe someone can give me an advice about it? Any tool is fine for me as long as it works under linux.

chip cel transcriptome • 2.6k views

ADD COMMENT • link updated 2.1 years ago by Ram 44k • written 9.8 years ago by flyamer ▴ 60

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Maybe this old solution by seidel is still valid: How To Convert Cel File To Wig File

ADD REPLY • link updated 2.1 years ago by Ram 44k • written 9.8 years ago by PoGibas 5.1k

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Thank you, I've seen it already though. Unfortunately it requires Affy Tiling Array software which only works under Windows as far as I can tell.

ADD REPLY • link updated 2.1 years ago by Ram 44k • written 9.8 years ago by flyamer ▴ 60

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