Hello,
I am running R to combine data from three Affy platforms using the following
libraries (Affy, hgu133a2.db, and hgu133plus2.db). After loading the libraries
and reading in the data, I run the following to output a combined dataset with
the common probes on all three Affy platforms but get an error message:
...................
comdata2 <- combineAffyBatch(list(data1, data2, data3),
probepkg=c("hthgu133aprobe", "hgu133a2probe", "hgu133plus2probe"),
newcdf="comhgu133")
package:hthgu133aprobe hthgu133aprobe
package:hgu133a2probe hgu133a2probe
package:hgu133plus2probe hgu133plus2probe
241661 unique probes in common
Error in as.vector(x, "character") :
cannot coerce type 'closure' to vector of type 'character'
....................
If I run the code with only two datsets (data1 and data 2 or data 1 and data 3,
it runs fine: e.g.: comdata2 <- combineAffyBatch(list(data1, data2),
probepkg=c("hthgu133aprobe", "hgu133a2probe"), newcdf="comhgu133")). The
problem seems to occur with combining all three datasets. Does anyone know how
to fix this?
Thanks!
Anu
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