Problem in calling peak by MACS3 · Biostar

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Problem in calling peak by MACS3

Hi everyone, I have the CUT&RUN data in my sample. I have generated bigwig file by deepTools When I compare my bigwig files and bed files (after MACS3 peak calling), I see that there are many peaks which are appearing when I visualize the bigwig files but not in bed files. Which other parameters I can play with in MACS to get all the peaks. Best regards Masomeh

macs3

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updated 1.8 years ago by ATpoint

• written 1.8 years ago by daffodil •

Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one answer if they all work. If an answer was not really helpful or did not work, provide detailed feedback so others know not to use that answer.

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written 1.8 years ago by Pierre Lindenbaum

You really need to add some plots or images to illustrate. Right now it's "my cake looks different than on the bakery website" without any details what you did.

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written 1.8 years ago by ATpoint

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