User: cbcb

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cbcb0
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Posts by cbcb

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Comment: C: Normalised counts from RUVg in RUVSeq
... many thanks ...
written 3.1 years ago by cbcb0
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Comment: C: Normalised counts from RUVg in RUVSeq
... > tail(my_data)              A_count   B_count     D_count    C_count ERCC-00163   38.02860   42.57420   30.858200    29.8872 ERCC-00164    0.00000    1.12037    0.907595     0.0000 ERCC-00165  184.29200  211.75100  155.199000   174.3420 ERCC-00168    2.92528    1.12037    0.907595     0.0000 ERC ...
written 3.1 years ago by cbcb0
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Answer: A: Normalised counts from RUVg in RUVSeq
... Could you please comment on the below commands? is it right way to get the RUVg normalized data? thanks,   my_data=read.table(my_data_file, sep="\t", header=TRUE) ercc_rows <- grep("^ERCC", rownames(my_data)) my_data_ruv_object_k1 <- RUVg(x = as.matrix(my_data), cIdx = ercc_rows, k = 1) my ...
written 3.1 years ago by cbcb0
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Comment: C: Normalised counts from RUVg in RUVSeq
... Hi David, Many thanks for your quick reply. I did start with the RUVSeq vignette, but i can't find how to export the normalized counts? I have got a kinetics data and I dont know how to apply DESeq on such a data. Hence, I would like to export the RUVg normalized data frame.   Thanks,   Chris ...
written 3.1 years ago by cbcb0
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Answer: A: Normalised counts from RUVg in RUVSeq
... Hello, How to apply RUVg normalization on my FPKM or counts table followed by export/write the normalized data frame to a directory? Many thanks for your kind help in advance. Chris     ...
written 3.1 years ago by cbcb0

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