In BioC 3.15 proteinToGenome() became an S4 generic function defined in the GenomicFeatures package, with two methods: a default method (that will typically operate on a TxDb object), and a method that operates on a GRangesList object. See ?GenomicFeatures::proteinToGenome for the details.
Following this change, the proteinToGenome() function defined in the ensembldb package needs to be turned into an S4 method that operates on an EnsDb object.
Note that this PR requires GenomicFeatures >= 1.49.6 which should become available in BioC 3.16 via BiocManager::install() in the next 24-48 hours.
Hi,
In BioC 3.15
proteinToGenome()became an S4 generic function defined in the GenomicFeatures package, with two methods: a default method (that will typically operate on a TxDb object), and a method that operates on a GRangesList object. See?GenomicFeatures::proteinToGenomefor the details.Following this change, the
proteinToGenome()function defined in the ensembldb package needs to be turned into an S4 method that operates on an EnsDb object.Note that this PR requires GenomicFeatures >= 1.49.6 which should become available in BioC 3.16 via
BiocManager::install()in the next 24-48 hours.Cheers, H.