Hi,
While running the CONICS on my scRNAdata , I got this error. I also have allocated 128gb memory.
Is this the memory issue or something else?
suva_expr = as.matrix(chosenCluster[["RNA"]]@CountS)
Warning message:
In asMethod(object) :
sparse->dense coercion: allocating vector of size 21.8 GiB
cpm = scale(suva_expr, center=F, scale=colSums(suva_expr)/1e6)
suva_expr = log2(cpm+1)
suva_expr[which(is.na(suva_expr))]=0
regions=read.table("chromosome_arm_positions_grch38.txt",sep="\t",row.names = 1,header = T)
genePos = read.csv("genePos.csv", sep = "\t", header = TRUE)
suva_expr=filterMatrix(suva_expr, genePos[,"hgnc_symbol"], minCells=10)
Segmentation fault
thank you
Hi,
While running the CONICS on my scRNAdata , I got this error. I also have allocated 128gb memory.
Is this the memory issue or something else?
suva_expr = as.matrix(chosenCluster[["RNA"]]@CountS)
Warning message:
In asMethod(object) :
sparse->dense coercion: allocating vector of size 21.8 GiB
cpm = scale(suva_expr, center=F, scale=colSums(suva_expr)/1e6)
suva_expr = log2(cpm+1)
suva_expr[which(is.na(suva_expr))]=0
regions=read.table("chromosome_arm_positions_grch38.txt",sep="\t",row.names = 1,header = T)
genePos = read.csv("genePos.csv", sep = "\t", header = TRUE)
suva_expr=filterMatrix(suva_expr, genePos[,"hgnc_symbol"], minCells=10)
Segmentation fault
thank you