.GSE3649_convert. CellMix 1.6

Description

Function used to create the additional feature annotation data GSE3649_fdata for the GSE3649 expression data.

.GSE3649_convert(eset, file, mode = c("out", "in"))

eset: ExpressionSet object from GSE3649 [GPL3121]
file: source file
mode: usage mode: 'out' for writing out GenBank ids, 'in' for reading in the result file from IDconverter.

a data.frame

The function was used twice:

once to extract and save in a file the GenBank accession numbers from the feature annotation data of the original ExpressionSet object -- created with getGEO. The content of the file (a list of GenBank IDs, one per line) is passed to IDconverter (see Reference) to obtain further annotation (ENTREZID, UNIGENE, ...). We used this online service because no annotation were available for these accession numbers in the organism annotation package org.Hs.eb.
once to load the annotation back from IDconverter result file (a tab delimited text file).