isglobal-brge / affy2sv Goto Github PK

Hi :)

I want to use affy2sv.

But, I can not find user guide.
I found wiki page link, but, repository not found anymore.

I downloded .zip file. But I would like to know more details on how to use it.

Thanks your reply!

Hi !

When I tried below code, I got Error.
`aptParam <- APTparam(
type="cytoscan",
level="standard",
cel.list="/Dir/to/CEL",
output.path="/Dir/to/CEL",
analysis.path="/Dir/to/CytoScanHD_Array_Analysis_Files_NA36.r6/",
cdf="CytoScanHD_Array.cdf",
chrX="CytoScanHD_Array.chrXprobes",
chrY="CytoScanHD_Array.chrYprobes",
qca="CytoScanHD_Array.r1.qca",
qcc="CytoScanHD_Array.r1.qcc",
snp="CytoScanHD_Array.snplist.txt",
annot.db="CytoScanHD_Array.na36.annot.db",
refmodel="CytoScanHD_Array.na36.r1.REF_MODEL"
)

Cyto2APT(aptParam)`

In Base Engine Constructor
In Base Engine Destructor
In Base Engine Constructor
CNAnalysisEngine::createAnalysis()
CovariateParams::determineCovariateMap - num of covariates to load: 0
In Base Engine Destructor
Parameters are ok.

FATAL ERROR:File5: File5_Group.cpp:388 File5_Group::open('Reference'): Unable to open group!

What is the problem?

Thanks for reply!

Hi,

I'm trying to install affy2sv on R and am getting this error:

Warning message: package ‘affy2sv’ is not available (for R version 3.5.1)

I am using
install.packages("affy2sv") to try to install affy2sv.

Has the R dependency changed for the package? I also tried R 4.0 and I got the same error.

Thank you!