[BioC] GenomicFeatures Reading GFF Efficiency

Dario Strbenac D.Strbenac at garvan.org.au
Fri Nov 16 03:00:12 CET 2012


After nearly 2 days, it gave an error :

Processing splicing information for gtf file.
Error in `colnames<-`(`*tmp*`, value = c("exon_chrom", "exon_start", "exon_end",  : 
  'names' attribute [9] must be the same length as the vector [6]
In addition: Warning message:
In .deduceExonRankings(exs) :
  Infering Exon Rankings.  If this is not what you expected, then please be sure that you have provided a valid attribute for exonRankAttributeName

This is the 1.10.0 version of GenomicFeatures in R 2.15.1.

Meanwhile, GENCODE version 14 is released, so you wouldn't have wanted my object of version 13 annotations, in the end.



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