Genotype analysis of microarray data

Question

[fawazfebin]

Hi , Can anyone guide me on some open source tools for genotype analysis of Illumina microarray data? As I understand Illumina Infinium microarray data have .idat file format. Are these files encrypted? Where can I find some sample files? Thanks in advance.

Answer 1

[Benn]

I don't have experience with this type of analysis, but a quick google search directs me to argyle. Have you tried this already? There is a vignette with examples available.

[fawazfebin]

Great thanks for the information,Benn ! Infact, even I am new to genotype analysis and did find some R packages for the same but was unsure of which software to select. Are you aware of any decrypting software related to microarray data?

[Benn]

Try limma's read.idat function, see if it works for you.