I have an agilent Chip on chip tiling array data and wonder if there is a GUI based workflow out which can help me to analyze the data.
Does your institution have any commerical licenses? I know Partek has a Chip-chip workflow. I think GeneSpring might also have similar functionality.
I haven't tested it myself, but I believe CisGenome is an open-source tool that can also help you:
You may be able to find others by Googling "chip-chip peak calling GUI"
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