[BioC] silly question about AnnotationDbi/seqnames.db

[Marc Carlson]

Hi Tim,

If you want to add support for a new style, please feel free to have a 
look here:

library(AnnotationForge)
?generateSeqnames.db

Then when you have a new .csv file (or files) formatted to include the 
new style, send it (or them) to me.


   Marc


On 05/10/2013 01:23 PM, Tim Triche, Jr. wrote:
> How come SNPlocs-style "ch21" seqnames aren't in seqnames.db?
>
> R> supportedSeqnameMappings()$Homo_sapiens
> data frame with 25 rows and 2 columns
>             NCBI        UCSC
>      <character> <character>
> 1             1        chr1
> 2             2        chr2
> 3             3        chr3
> 4             4        chr4
> 5             5        chr5
> ...         ...         ...
> 21           21       chr21
> 22           22       chr22
> 23            X        chrX
> 24            Y        chrY
> 25           MT        chrM
>
> R> packageVersion('seqnames.db')
> [1] '1.0.1'
>
>
>