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sparse peak calling

I have a Chipseq data and I expects peaks should be sparse. Which tool may be best to call sparse peaks? Can I also use same tool for calling sparse peaks of cut and Run experiment.

Thanks

chip-seq
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updated by AS • AS • written by kanwarjag kanwarjag

Do you mind defining what you consider sparse peaks?

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written by rpolicastro rpolicastro

The low read depths and background levels and broader peaks.

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written by kanwarjag kanwarjag

Hi Kanwarjag, why don't you increase the depth of sequencing ? or merge more IP

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written by Morris_Chair Morris_Chair

1 answer

You can try SEACR : https://epigeneticsandchromatin.biomedcentral.com/articles/10.1186/s13072-019-0287-4

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written by AS • AS

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