Question: Reading .bpmap files for homemade tiling arrays
9.6 years ago by
Larry Singh • 20
Larry Singh • 20 wrote:
Patrick Schorderet <patrick.schorderet at="" ...=""> writes: > > > Hello everybody, > > I am trying to normalize some ChIP-chip data using rMAT and to do so, > you have to feed your .bpmap to the program (the file contains > information relating to the design of the Affymetrix tiling arrays). > Unfortunately, I get an error saying I am working with doubles instead > of the wanted integer. I have not changed the .bpmap file at all and I > can make no sense of it because have nothing to open it properly. I > guess it might be due to the customized array we are using. The sizes > might be different? > > Thanks for the help, > > Patrick [ ... deleted ] Patrick, I had a similar problem, and after some debugging I discovered that you must enter a valid groupName when calling BPMAPCelParser. You can get a list of the group names in the bpmap file by just looking at bpmapA$GroupName. I'm not sure this will solve your problem but perhaps it will. Hope this helps, -Larry.
ADD COMMENT • link •