User: devyani66

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devyani660
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Posts by devyani66

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Comment: C: Error while running affylmGUI
... Thank you for your response. And so sorry for a super late reply. To keep it simple, I just mapped the probe ids from the normalized file to the annotation file using simple R command. It worked. Regards ...
written 6 months ago by devyani660
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Comment: C: Error while running affylmGUI
... I checked you answer to a similar question 8 yrs ago- https://support.bioconductor.org/p/40823/ I am not sure if I understood well, but I suppose I have to install the proper annotation package. For me, while I tried to install "rmhu01aa520485cdf" file, it wrote I did not have "AnnotationDbi" pac ...
written 6 months ago by devyani660
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Comment: C: Error while running affylmGUI
... Hi Mr.Gordon, I have one more query regarding this. So, I ran these steps before carrying out normalization using affylmGUI. ``` > library(makecdfenv) > make.cdf.package("GPL10687_RM-HU01Aa520485_custom_MMPM.cdf.gz", > "rmhu01aa520485cdf", compress=TRUE, species="Homo_sapiens") > BiocM ...
written 6 months ago by devyani660 • updated 6 months ago by Gordon Smyth38k
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Comment: C: Error while running affylmGUI
... Thank you for your reply. My bad I didnt mention that I did go through the above link where MacDonald explained how to get the package. I had tried everything mentioned in and still, it used to give the same error. Now going through again I realized the problem was with the name of the cdf file. I ...
written 6 months ago by devyani660
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Error while running affylmGUI
... Hello, I am trying to run the affylmGUI R package and I get this error on CDF env during the normalization step. Below is the link: [CDF env Error][1] Any idea what might be the reason? I googled it but didnt find much help. Thanks in advance. [1]: https://www.dropbox.com/s/uaxfsbrmzawz56w/Erro ...
microarray affy limma affylmgui written 6 months ago by devyani660 • updated 6 months ago by Gordon Smyth38k
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Answer: A: R Text progress bar error
... Thank you for your reply. Yes indeed it was a path problem and it was solved. But now I am getting another error :( The error is -   0%Error in fread(files[i], header = TRUE, sep = "\t", stringsAsFactors = FALSE, : colClasses is unnamed and length 5 but there are 4 columns. See ?data.table for ...
written 3.7 years ago by devyani660 • updated 3.7 years ago by Martin Morgan ♦♦ 23k
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R Text progress bar error
... I was trying to execute TCGAbiolink package in R. I am facing a error while preparing the file after download... i.e during TCGAprepare function.   Command is-  Dev.met <- TCGAprepare(query = query, dir = "D:/TCGA_DATA/TCGAbiolink/", save = TRUE, filename = "MetDev.rda", reannotate = TRUE) The e ...
tcga written 3.7 years ago by devyani660

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Popular Question 3.7 years ago, created a question with more than 1,000 views. For R Text progress bar error

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