User: k.panov

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k.panov0
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Posts by k.panov

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Comment: C: DiffBind question: How to extract read counts?
... Hi Rory, Just to clarify, the counts extracted by dba.peakset function, aren't normalized to the library size, aren't they? Regards Konstantin   ...
written 15 months ago by k.panov0
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Comment: C: DiffBind question: How to extract read counts?
... Thank you very much Rory, that what I need . Regarding peak names, I just was not sure if any peak names (e.g. Peak 1, Peak 2 and so for) were given in addition to coordinates. Regards Konstantin ...
written 15 months ago by k.panov0
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DiffBind question: How to extract read counts?
... Hi Rory, I wonder, if it is possible to extract counting data (after performing dba.count) from a resulting DBA object in csv format where consensus peak names are in the first column, peak positions  are in the second/third/forth colums (chromosome, start, end) and  normalized number of reads for ...
diffbind read counts extract data written 15 months ago by k.panov0 • updated 15 months ago by Rory Stark2.8k
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error in TCseq
... Hello, I have following error message when I run TCseq 3.6 package:  > tca <- DBanalysis(tca) Error in .compressDispersions(y, dispersion) : dispersions must be finite non-negative values In addition: Warning message: In estimateDisp.default(y = y$counts, design = design, group = group, ...
tcseq written 15 months ago by k.panov0
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Comment: C: "input object should be a named list" error in ChIPseeker
... Cool, it works now! Thank you very much. Could I suggest to add this into ChIPseeker manual? Best regards Konstantin ...
written 16 months ago by k.panov0
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"input object should be a named list" error in ChIPseeker
... Hello, I am analyzing two MACS2 bed files using ChIPseeker. Individual analysis is OK, but I'm getting an error message for simultaneous analysis of two files when using following ChIPSeeker functions: plotAnnoBar, plotDistToTSS and vennplot. All error messages are similar: Error in XXXX (peakAnnoL ...
chipseeker vennplot named list error plotannobar plotdisttotss written 16 months ago by k.panov0 • updated 16 months ago by Guangchuang Yu1.1k

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