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snystrom / cutNrun-pipeline

Analysis pipeline for CUT&RUN Data. Currently configured for use in the McKay Lab at UNC, but extensible elsewhere by changing configuration files.
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Add SEACR peak-calling functionality #45

Closed half-adder closed 2 years ago

half-adder commented 2 years ago

See: https://github.com/FredHutch/SEACR

Still needs IgG normalization, but uses a stringent static threshold right now. Works pretty well.

Black is current MACS2-based peak calls. Blue is SEACR-based. H3K27me3 CnR. image

half-adder commented 2 years ago

If we merge, we should squash these commits

half-adder commented 2 years ago

Oops, realized I did this for your version spencer not the mckaylab fork.