User: xuzihan0910

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Posts by xuzihan0910

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Comment: C: BagFoot TF foot printing
... Hi Mathilde, Thanks for the tips, very useful. For the meme files, I download it from JASPAR: http://jaspar.genereg.net/search?q=Mus+musculus&collection=CORE&tax_group=vertebrates&tax_id=all&type=all&class=all&family=all&version=all This is the example for mouse, you can ...
written 11 days ago by xuzihan09100
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Comment: C: BagFoot TF foot printing
... Hi Mathilde, Thanks a lot for the quick reply and code. One more question, I'm not sure where to download the mappability file that ends with .out format as mentioned in the bagfoot_prep_example.R. The only website that I found is this: http://archive.gersteinlab.org/proj/PeakSeq/Mappability_Map/M. ...
written 11 days ago by xuzihan09100
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Comment: C: BagFoot TF foot printing
... Hi Mathilde, Could you please provide more details on how to concatenate the two Hexamer tables? I'm still confused. What's more, do you find any difference when generating the hexamer bias frequency table with or without mappability? Thanks a lot in advance! Zihan ...
written 14 days ago by xuzihan09100

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