calc.best.probe.topTable: From a toptable which contains probe ID's in the ID column,...
In drmjc/microarrays: A collection of microarray and genomic helper code.

Description Usage Arguments Author(s)

If multiple probes map to a gene symbol, then just 1 row will be returned - the one with the max(abs(tstat)) If the probe has no symbol (or is "—", "", NA, NULL, symbols.ignore.list) then it will also be exported.

1 2	calc.best.probe.topTable(tt, probe2gene, toupper = TRUE, symbols.ignore.list = c("---", ""), only.genes = FALSE)

`tt`	a toptable
`probe2gene`	a 2 column data frame with probes and gene symbols
`toupper`	if TRUE, convert the gene symbol to UPPERCASE; FALSE leaves it untouched
`symbols.ignore.list`	Probes with these values as gene symbols, as well as NA and NULL will not be merged to the same value, otherwise the 1000 probes that map to "—" will be collapsed to a single 'gene'
`only.genes`	After collapsing multiple probes to one, if TRUE, then only the probes with real gene symbols will be exported; if FALSE, all collapsed probes with or without a gene symbol will be exported.