[BioC] Error in normalize.quantiles.robust
DAVID ARTETA GARCIA
darteta001 at ikasle.ehu.es
Wed Jul 2 14:14:53 CEST 2008
Dear list, I have a matrix I imported using read.table with raw
intensity data for 12 samples and 2300 genes in one colour, as folows:
> dim(xxx)
[1] 2352 12
> head(xxx)
0025 0039 0041 0043 0047 0058 0061 0067 0072 0073 0078 0085
A0001 953 509 1669 867 6672 1526 453 397 883 686 382 429
A0002 1769 641 1635 1357 4364 1308 552 441 888 1374 493 693
A0003 2304 943 2701 1745 4966 1622 807 591 1283 1579 517 870
A0004 2185 1235 3992 1866 6462 1556 1004 781 1512 1911 762 906
A0005 1842 1008 1904 1434 6331 1155 759 515 1155 1448 510 764
A0006 1586 909 2294 641 7729 1367 788 489 1317 714 503 301
> class(xxx)
[1] "matrix"
I am trying to normalize using robust quantiles but I get an error
that I don´t understand.
> log.quant.rob.norm<-normalize.quantiles.robust(xxx,use.log2=TRUE)
Error in normalize.quantiles.robust(xxx, use.log2 = TRUE) :
REAL() can only be applied to a 'numeric', not a 'integer'
> is.numeric(xxx)
[1] TRUE
Can anyone help me with this?
TIA,
D.
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