User: Shicheng Guo

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Posts by Shicheng Guo

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getGEO: not all columns named in 'colClasses' exist and invalid 'nlines' argument
... Hi All, When I try to download GSE49656 with GEOquery, errors were always reported: such as not all columns named in 'colClasses' exist   When I change to server (linux), some other error reported: Error in read.table(con, sep = "\t", header = FALSE, nrows = nseries) :  invalid 'nlines' argument ...
geoquery written 2.9 years ago by Shicheng Guo0
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methyAnalysis: heatmapByChromosome not works
... The following error was reported when the example code was run:   library(methyAnalysis) ## load the example data data(exampleMethyGenoSet)   eatmapByChromosome(exampleMethyGenoSet, gene='6493', genomicFeature='TxDb.Hsapiens.UCSC.hg19.knownGene', includeGeneBody=TRUE, newPlot=FALSE) Error in ` ...
methyanalysis written 3.0 years ago by Shicheng Guo0
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Answer: A: Minfi error in reading Basename column
... I know the reason eventually, please see the following script which was used by ChAMP or some other package to read and creat SampleSheet.csv.   read.metharray.sheet() function (base, pattern = "csv$", ignore.case = TRUE, recursive = TRUE, verbose = TRUE) { readSheet <- function(file) ...
written 3.1 years ago by Shicheng Guo0
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Bugs for impute package
... Anyone met this problem recently? I used impute package for long time and have never met this problem before. However, it seems this problem come out in the current lastest impute package, right?    Package ‘impute’ September 12, 2016 Title impute: Imputation for microarray data Version 1.46.0   ...
impute bugs written 3.1 years ago by Shicheng Guo0
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Answer: A: How to get the all CpG sites genome postion for mm9?
...   Download all CpG sites genome postion for mm9 with the following link and passwd: 13120864 CpGs in mm9 genome download (0-based coordinate): link: https://yunpan.cn/cMnXcANdY8mgP   passwd: 37bb   Download all CpG sites genome postion for mm10 with the following link and passwd: 13103624 CpG ...
written 3.1 years ago by Shicheng Guo0
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ChAMP input: Beta Matrix?
... Hi ChAMP users: Can we start the DMR analysis from Beta-matrix, rather than idat, by ChAMP? You know sometimes, we don't have idat, only have beta-matrix (case-control). Thanks.  ...
champ dmr analysis written 3.6 years ago by Shicheng Guo0 • updated 3.0 years ago by hseepany0

Latest awards to Shicheng Guo

Popular Question 2.9 years ago, created a question with more than 1,000 views. For ChAMP input: Beta Matrix?
Autobiographer 4.4 years ago, has more than 80 characters in the information field of the user's profile.

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