Import problem with HTqPCR Fluidigm 96.96
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reed27 • 0
@reed27-15105
Last seen 6.2 years ago

Hi,

I've been working on importing my Biomark Fluidigm 96.96 readout using HTqPCR. The error I was receiving originally was:

> readCtData(files = "fluidigm results.txt", path = "c:/users/myself/desktop", format = "BioMark", n.features = 96, n.data = 96)
Error in `$<-.data.frame`(`*tmp*`, Call, value = character(0)) :
  replacement has 0 rows, data has 9216

Then I used a post found here: HTqPCR error and thought I had remedied the problem but got this error in return:

> raw1 <- readCtData(files="fluidigm results.txt", path = "c:/users/myself/desktop", n.features=96, n.data=96, column.info = list(flag=9, feature=5, type=6, Ct=7, position=1), skip=12, sep="\t")
Warning messages:
1: In .readCtPlain(readfile = readfile, header = header, n.features = n.features,  :
  96 gene names (rows) expected, got 9205
2: In matrix(sample[, column.info[["Ct"]]], ncol = n.data[i]) :
  data length [9205] is not a sub-multiple or multiple of the number of rows [96]
3: In matrix(sample[, column.info[["flag"]]], ncol = n.data[i]) :
  data length [9205] is not a sub-multiple or multiple of the number of rows [96]

Any thoughts?

htqpcr bioconductor fluidigm biomark • 907 views
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