Hi jo, getChromInfoFromBiomart() is a higher level function that is exported, documented, and intended to be used by the user for that, rather than internal helpers fetchChromLengthsFromEnsembl() and fetchChromLengthsFromEnsemblPlants().
However, after some discussions here with Marc and Sonali, my understanding is that the GRanges objects made from the Ensembl GTF files are going to have their seqinfo updated soon so you won't need that. H. On 04/11/2015 12:37 PM, Rainer Johannes wrote:
I wanted to ask whether it would be possible to export the functions "fetchChromLengthsFromEnsembl" and "fetchChromLengthsFromEnsemblPlants" in GenomicFeatures, as I find these methods quite useful to retrieve chromosome lengths. best, jo _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
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