User: arshiaurora

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Posts by arshiaurora

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Comment: C: ABSOLUTE warning on cbs output
... Prameter to copy_num_type is set to total only. Here are the rest of the parameters.  sigma.p <- 0  max.sigma.h <- 0.02 min.ploidy <- 0.95 max.ploidy <- 10 primary.disease<-"kidney" platform<-'Illumina_WES' max.as.seg.count <- 1500 max.neg.genome <- 0 max.non.clonal <- ...
written 3.9 years ago by arshiaurora0
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ABSOLUTE warning on cbs output
... Hi, I am running ABSOLUTE on a cbs input file without the maf option. I get the following warning: In if (!is.na(res)) { ... : the condition has length > 1 and only the first element will be used I also get ploidy of an order of 7.(which is not expected) Can anyone help me with the warning ? ...
maf absoliute clonality purity written 3.9 years ago by arshiaurora0
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Comment: C: processing illumina signal count
... As you can see this cannot be processed by R package LUMI as I don't have the necessary BEAD columns.  ...
written 4.5 years ago by arshiaurora0
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processing illumina signal count
... Hi, I have downloaded an available Illumina data set from GSE. say GSExxx_non-normalized.txt. When I open this file I see Ilumina probes and two columnsfor each sample - Sample name and Detection P.val The values under Sample name are probe intensities I am assuming. And since they range from 200 ...
illumina process gse raw count written 4.5 years ago by arshiaurora0

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