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Ben Woodcroft wrote: > Hi, > > Apologies if I am missing something obvious. I wanted to get all the child > terms of MF (molecular function, GO acc GO:0003674): > > >> library(GO) >> get("GO:0003674", GOMFCHILDREN) >> > isa isa isa isa isa > isa > "GO:0000332" "GO:0003774" "GO:0003824" "GO:0005198" "GO:0005215" > "GO:0005488" > isa isa isa isa isa > isa > "GO:0015457" "GO:0016209" "GO:0016530" "GO:0030188" "GO:0030234" > "GO:0030528" > isa isa isa isa isa > isa > "GO:0031386" "GO:0042056" "GO:0045182" "GO:0045499" "GO:0045735" > "GO:0060089" > > > GO:0000332 is not a child (though it is a descendent) of molecular function: > http://amigo.geneontology.org/cgi-bin/amigo/go.cgi?view=details&sear ch_constraint=terms&depth=0&query=GO:0000332&session_id=8078b120528449 0 > > Any idea what I am missing? According to AMIGO, the rest of the terms there > are correct (and that's the full set). > > Thanks in advance, > ben > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > > First of all thanks for pointing this out. I have looked into why this was happening and have found the cause to be the source files that come from ftp.geneontology.org . As you observed, the error appears to only affect the direct term to term association mapping for this one term. I have notified them of the error and I anticipate that it will probably be cleaned up very soon. Marc