[R] Error during working with wgcna and R

[KK]

I am also working on co-expression analysis. It seems like there is no way 
to use TOMsimilarityFromExpr for large datasets. 
The option 'maxBlockSize' exists for module detection but not for 
TOMsimilarity? The only solution seems to reduce the dataset

On Sunday, July 8, 2012 1:02:54 PM UTC+2, deeksha.malhan wrote:
>
> Hi 
> I am working on co-expression analysis of rice dataset with the help of 
> wgcna and R but now I am  at one point which is showing error as shown 
> below 
> : 
>
>
>  dissTOM = 1-TOMsimilarityFromExpr(datExpr, power = 8); 
> Error: cannot allocate vector of size 2.8 Gb 
> In addition: Warning messages: 
> 1: In matrix(0, nGenes, nGenes) : 
>   Reached total allocation of 2550Mb: see help(memory.size) 
> 2: In matrix(0, nGenes, nGenes) : 
>   Reached total allocation of 2550Mb: see help(memory.size) 
> 3: In matrix(0, nGenes, nGenes) : 
>   Reached total allocation of 2550Mb: see help(memory.size) 
> 4: In matrix(0, nGenes, nGenes) : 
>   Reached total allocation of 2550Mb: see help(memory.size) 
>
> Help me to resolve this problem 
>
> -- 
> View this message in context: 
> http://r.789695.n4.nabble.com/Error-during-working-with-wgcna-and-R-tp4635768.html 
> Sent from the R help mailing list archive at Nabble.com. 
>
> ______________________________________________ 
> R-h... at r-project.org <javascript:> mailing list 
> https://stat.ethz.ch/mailman/listinfo/r-help 
> PLEASE do read the posting guide 
> http://www.R-project.org/posting-guide.html 
> and provide commented, minimal, self-contained, reproducible code. 
>