User: snigdhapola

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Posts by snigdhapola

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Comment: C: Quantifying peaks corresponding to a purticular feature
... No. If we get more than one peak in a given window size, around a gene, for a particular histone modification or transcription factor, any idea if we have to consider peak with max p-value or an average of the p-values of all the peaks in that window size ? ...
written 4.3 years ago by snigdhapola0
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Answer: A: Quantifying peaks corresponding to a purticular feature
... It is after we get a count of no of peaks corresponding to a TF or histone mark, say around 3-4kb of  TSS region of a particular gene, do we go by taking an average of -log10(pvalue) of the peaks we obtained in the region or any other way ? ...
written 4.4 years ago by snigdhapola0
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Quantifying peaks corresponding to a purticular feature
... Hi, how to quantify the peaks annotated to a particular genomic region in a particular window size.   Thanks, Snigdha. ...
chipseeker written 4.4 years ago by snigdhapola0
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Answer: A: Chipseeker : problem running Chipseeker to ENCODE datasets
... Hi, Thank you for the response. We were trying to run it with developmental version of R and was encountering the error, even for the example data provided with the package. We tried it with R 3.2.0 and it is running fine. Thanks again for the response. ...
written 4.4 years ago by snigdhapola0
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Chipseeker : problem running Chipseeker to ENCODE datasets
... Hi, I am trying to run ChiPseeker  for ENCODE datasets and been getting the following error: "Error in unlist(metadata(TXDB)) :   error in evaluating the argument 'x' in selecting a method for function 'unlist': Error in sqliteSendQuery(con, statement, bind.data) :   expired SQLiteConnection"   ...
chipseeker written 4.4 years ago by snigdhapola0 • updated 4.4 years ago by Guangchuang Yu1.1k

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