Dear all,

I've added ensembldb EnsDb databases for all species of Ensembl release 98 to AnnotationHub. These databases provide now also the G-C nucleotide content for each transcript in metadata column "gc_content" (see below).

cheers, jo

> library(AnnotationHub)
> query(AnnotationHub(), "EnsDb", "v98")
snapshotDate(): 2019-10-29
AnnotationHub with 1321 records
# snapshotDate(): 2019-10-29 
# $dataprovider: Ensembl
# $species: Homo sapiens, Ailuropoda melanoleuca, Anolis carolinensis, Astya...
# $rdataclass: EnsDb
# additional mcols(): taxonomyid, genome, description,
#   coordinate_1_based, maintainer, rdatadateadded, preparerclass, tags,
#   rdatapath, sourceurl, sourcetype 
# retrieve records with, e.g., 'object[["AH53185"]]' 

            title                                      
  AH53185 | Ensembl 87 EnsDb for Anolis Carolinensis   
  AH53186 | Ensembl 87 EnsDb for Ailuropoda Melanoleuca
  ...       ...                                        
  AH75116 | Ensembl 98 EnsDb for Xenopus tropicalis    
  AH75117 | Ensembl 98 EnsDb for Zonotrichia albicollis
> edb <- AnnotationHub()[["AH75117"]]
snapshotDate(): 2019-10-29
downloading 1 resources
retrieving 1 resource
  |======================================================================| 100%

loading from cache
require(“ensembldb”)
> transcripts(edb)
GRanges object with 30624 ranges and 9 metadata columns:
                           seqnames       ranges strand |              tx_id
                              <Rle>    <IRanges>  <Rle> |        <character>
  ENSZALT00000030003 ARWJ01023036.1 21700-155713      + | ENSZALT00000030003
  ENSZALT00000030004 ARWJ01023036.1 21700-155713      + | ENSZALT00000030004
                 ...            ...          ...    ... .                ...
  ENSZALT00000002807     KB915622.1  13173-14579      - | ENSZALT00000002807
  ENSZALT00000002808     KB915622.1  13173-14579      - | ENSZALT00000002808
                         tx_biotype tx_cds_seq_start tx_cds_seq_end
                        <character>        <integer>      <integer>
  ENSZALT00000030003 protein_coding            21700         155677
  ENSZALT00000030004 protein_coding            21700         155207
                 ...            ...              ...            ...
  ENSZALT00000002807         lncRNA             <NA>           <NA>
  ENSZALT00000002808         lncRNA             <NA>           <NA>
                                gene_id tx_support_level        tx_id_version
                            <character>        <integer>          <character>
  ENSZALT00000030003 ENSZALG00000017908             <NA> ENSZALT00000030003.1
  ENSZALT00000030004 ENSZALG00000017908             <NA> ENSZALT00000030004.1
                 ...                ...              ...                  ...
  ENSZALT00000002807 ENSZALG00000001837             <NA> ENSZALT00000002807.1
  ENSZALT00000002808 ENSZALG00000001837             <NA> ENSZALT00000002808.1
                           gc_content            tx_name
                            <numeric>        <character>
  ENSZALT00000030003  42.803825519011 ENSZALT00000030003
  ENSZALT00000030004 42.7888065056207 ENSZALT00000030004
                 ...              ...                ...
  ENSZALT00000002807 51.9956850053937 ENSZALT00000002807
  ENSZALT00000002808 52.7659574468085 ENSZALT00000002808
  -------
  seqinfo: 1729 sequences from Zonotrichia_albicollis-1.0.1 genome