USEQ is a good tool with step-by-step guide
For windows solution, using cisGenome is good idea. It requires minimal pre-processing of solexa data before running it through cisGenome.
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ChIP-seq data analysis for beginner
I should be getting back my first ChIP-seq data this week.
Which software do people recommend I use for data analysis, peak calling, etc. Any help with the criteria I should be asking to choose a certain software would be helpful and resources to answer my questions.
I'm bench scientist not a bioinforamtician so something reasonably user friendly would be nice, even better if I can run it on my MacBook.
Thanks.
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