[R] SAMseq errors

array chip arrayprofile at yahoo.com
Wed Nov 29 18:34:21 CET 2017

Hi, I am trying to using SAMseq() to analyze my RNA-seq experiment (20000 genes x 550 samples) with survival endpoint. It quickly give the following error:
> library(samr)Loading required package: imputeLoading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
    anyMissing, rowMedians
Warning messages:1: package ‘samr’ was built under R version 3.3.3 2: package ‘matrixStats’ was built under R version 3.3.3
> samfit<-SAMseq(data, PFI.time,censoring.status=PFI.status, resp.type="Survival")
Estimating sequencing depths...Error in quantile.default(prop, c(0.25, 0.75)) :   missing values and NaN's not allowed if 'na.rm' is FALSEIn addition: Warning message:In sum(x) : integer overflow - use sum(as.numeric(.))Error during wrapup: cannot open the connection
> sessionInfo()R version 3.3.2 (2016-10-31)Platform: x86_64-w64-mingw32/x64 (64-bit)Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    
attached base packages:[1] stats     graphics  grDevices datasets  utils     methods   base     
other attached packages:[1] samr_2.0             matrixStats_0.52.2   impute_1.48.0        BiocInstaller_1.24.0 rcom_3.1-3           rscproxy_2.1-1      
loaded via a namespace (and not attached):[1] tools_3.3.2

I checked, my data matrix and y variables have no missing values. Anyone has suggestions what's going on?
Thank you!

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