total number of peaks vs putative peaks

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9.5 years ago

Azhar ▴ 50

I have done some chip-seq analysis, and I have got 560 total number of peaks and 860 putative peaks ? what is answer to this question ? limit of peak hight was 144, is that means putative peaks are above tha limit those are false postive not included in total number of peaks?

ChIP-Seq • 1.8k views

ADD COMMENT • link updated 23 months ago by Ram 44k • written 9.5 years ago by Azhar ▴ 50

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What package did you do your analysis in?

ADD REPLY • link updated 23 months ago by Ram 44k • written 9.5 years ago by Jautis ▴ 580

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Homer factor -200

ADD REPLY • link 9.5 years ago by Azhar ▴ 50

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Sorry, I've never heard of that one. I'm not sure I can be of any help

ADD REPLY • link 9.5 years ago by Jautis ▴ 580

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what you mean by pakage? I used Homer findPeaks factor-200 command

ADD REPLY • link 9.5 years ago by Azhar ▴ 50

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By package I mean whatever program you were using for analysis (so in this case Homer). That isn't a program I've heard of before so I don't know what the output means

ADD REPLY • link 9.5 years ago by Jautis ▴ 580

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