HELP

[林子熙]

Hi,

I encountered the following error while executing the DAPC script. May I ask how to solve this big data file processing? My file is a 12Gb SNP file. When I use Rstudio, "Error: cannot allocate vector of size 24.6 Gb" is displayed in "read. vcfR". When using Linux R, "NA overflow" is displayed in "x", and "grp<- find. clusters (x, max. n. cluster=40)" is running continuously. Additionally, Can the DAPC script display the proportion of PC1 and PC2, and how to implement it? Thank you. 

Xu Jun

[Zhian Kamvar]

Unfortunately, it sounds like you do not have enough memory on your computer to process this file in R (which needs 2x the amount of memory for the size of the file). I would suggest filtering your snps for quality and missingness before passing into R.

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[林子熙]

Hi, is there any packages or software you know that can do the same thing as DAPC for huge data ？Whether to do PCA analysis alone should not be very persuasive？