Hi
I am analyzing my first data of Chip-Seq (with the antibody H4K16Ac) using Partek.
In the initial step of detecting peaks I obtained a lot of peaks for some of the samples (100.000 – 200.000) and of course, then, I obtained large lists of associated genes. How can I do to filter these data? The control (not IP) is not enough to reduce substantially these values.
Can I filter by the number of reads in each peak? In this case which would be the optimal value?
Thanks!
I am analyzing my first data of Chip-Seq (with the antibody H4K16Ac) using Partek.
In the initial step of detecting peaks I obtained a lot of peaks for some of the samples (100.000 – 200.000) and of course, then, I obtained large lists of associated genes. How can I do to filter these data? The control (not IP) is not enough to reduce substantially these values.
Can I filter by the number of reads in each peak? In this case which would be the optimal value?
Thanks!
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