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jsh58 / Genrich

Detecting sites of genomic enrichment
MIT License
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CUT&TAG with Genrich #107

Open sunta3iouxos opened 8 months ago

sunta3iouxos commented 8 months ago

Are there specific setting or CUT&RUN. This the MNAse approach. MACS2 is not working that well do to low background.

jsh58 commented 8 months ago

There are no specific settings. You can check #92 for some discussion on this topic.

sunta3iouxos commented 7 months ago

There are no specific settings. You can check #92 for some discussion on this topic.

Hi @jsh58

92 reefers to settings for CUT and TAG. The difference between the CUT and RUN and CUT & TAG, is that the first one uses MNase, while the second one uses Tn5, thus it is closer to a ATAC-seq experiment. The first one is close to an MNAse-seq experiment, that will provide nucleosome positions.