Incompatible phenoData object error in ReadqPCR package
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jchoza • 0
Last seen 3.7 years ago

Hello, I'm a student attempting to analyze qPCR data. I will be doing this multiple times. I found the ReadqPCR package but am having trouble using it. I have read the vignette multiple times but still struggle to understand and I'm not sure why.

My current error that I'm facing is In read.qPCR(qPCR.example) : Incompatible phenoData object. Created a new one using sample name data derived from raw data.

Here is what I have written out, taken from the vignette: path <- system.file("R",package="ReadqPCR") qPCR.example <- file.path(path,"fiveThirtyPlate.txt") qPCRBatch.qPCR <- read.qPCR(qPCR.example)

My qPCR file is formatted as such: Well Sample Detector Cq A01 (genotype) (reagent) (value) etc.

Here is the sessionInfo() result: R version 3.6.0 (2019-04-26) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 17134)

Matrix products: default

locale: [1] LCCOLLATE=EnglishUnited States.1252 [2] LCCTYPE=EnglishUnited States.1252
[3] LCMONETARY=EnglishUnited States.1252 [4] LCNUMERIC=C
[5] LC
TIME=English_United States.1252

attached base packages: [1] parallel stats graphics grDevices utils datasets methods
[8] base

other attached packages: [1] ReadqPCR1.30.0 Biobase2.44.0 BiocGenerics_0.30.0

loaded via a namespace (and not attached): [1] compiler3.6.0 tools3.6.0

Any help would be appreciated.

ReadqPCR phenoData object • 273 views

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