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' -- *A model is a lie that helps you see the truth.* * * Howard Skipper<http: cancerres.aacrjournals.org="" content="" 31="" 9="" 1173.full.pdf=""> [[alternative HTML version deleted]]

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' > > >