User: geekyvt

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geekyvt0
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Posts by geekyvt

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Comment: C: QSEA: Need help on creating ROI for whole genome MeDIPSeq data
... Dear Matthias, Thank you for explaining this in detail. I still stuck with one place, ROIs is used in the below step, result=makeTable(qseaSet, glm=qseaGLM, groupMeans=getSampleGroups(qseaSet), keep=sig, annotation=ROIs, norm_method="beta") I guess this has been taken directly from data(annotatio ...
written 9 months ago by geekyvt0
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QSEA: Need help on creating ROI for whole genome MeDIPSeq data
... I am analyzing 4 MeDIP Seq samples. I wanted to know,  how do I create ROI. As of now, I do not have any shortlisted regions, I want to look at entire human genome. How to get it done.  Thanks in advance for any help. Vivek ...
qsea written 9 months ago by geekyvt0 • updated 9 months ago by Matthias Lienhard140
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Comment: C: QSEA: Error while addLibraryFactors
... Dear Matthias, Thank you so much for your help. The issue got solved after changing the order of commands and I am able to proceed further. Thanks, Vivek ...
written 9 months ago by geekyvt0
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Comment: C: QSEA Error while loading the bam files
... Thank you so much, Matthias. It really helped me a lot. I have updated all modules and it started working like a charm. thanks, Vivek ...
written 9 months ago by geekyvt0
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QSEA: Error while addLibraryFactors
... Hi, I am using QSEA for analyzing the MeDIPseq data. In middle, I am stuck with the below error. Could someone help? group <- c("treatment", "treatment", "control", "control") and all are female samples qseaSet=addLibraryFactors(qseaSet) Results in, deriving TMM library factors for 4 samples ...
qsea written 9 months ago by geekyvt0 • updated 9 months ago by Matthias Lienhard140
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Comment: C: ChiPQC run time error
... Hi,   Any success on this..?? ...
written 9 months ago by geekyvt0
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QSEA Error while loading the bam files
... Hi, I am using QSEA and while loading bam files, I am getting error like this... What could be the possible error...?? Error in validObject(.Object) :   invalid class “PhredQuality” object: undefined class for slot "elementMetadata" ("DataTableORNULL")     My script goes lik below, sample_name ...
qsea written 9 months ago by geekyvt0 • updated 9 months ago by Matthias Lienhard140

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