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Results Issues #19

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luofeng8023 opened this issue May 10, 2023 · 2 comments
Open

Results Issues #19

luofeng8023 opened this issue May 10, 2023 · 2 comments

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@luofeng8023
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Hi,

I am interested in using this workflow to analyze my eCLIP data and have yet to gain experience in eCLIP data analysis. I have analyized a eCLIP data and got “results” file folder. How to understand the obtained “ensembl.csv” file？How to visually call up rich peak areas?

Thanks for your time.

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@mkatsanto
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Hello,
thanks for showing interest in RCRUNCH. As described in the README file, there is an example case of some ENCODE eCLIP samples. The ensembl.csv file is just a table version of the provided gtf file used to make some downstream processes faster. The peak predictions are the bed files found within each of the samples. I will update the readme with the exact architecture soon to enable better understanding of the method.

@luofeng8023
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Hello,
Thanks for your answer. So, is it target genes that may be combined with RBD protein in ensembl.csv? Can we get bed files?

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@mkatsanto @luofeng8023