Hi,

I got error when I make transcript db from ucsc for mm8. Could anybody help me to figure out this? Thanks in advance.

Error in tableNames(ucscTableQuery(session, track = track)) :
  error in evaluating the argument 'object' in selecting a method for function 'tableNames': Error in normArgTrack(track, trackids) : Unknown track: UCSC Genes

The codes:
Library(GenomicFeatures)
mm8KG <- makeTranscriptDbFromUCSC(genome="mm8", tablename="knownGene")

sessionInfo()
R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] parallel  stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] GenomicFeatures_1.14.0 AnnotationDbi_1.24.0   Biobase_2.22.0         rtracklayer_1.22.0     GenomicRanges_1.14.3   XVector_0.2.0          IRanges_1.20.5
[8] BiocGenerics_0.8.0

loaded via a namespace (and not attached):
 [1] biomaRt_2.18.0    Biostrings_2.30.0 bitops_1.0-6      BSgenome_1.30.0   DBI_0.2-7         RCurl_1.95-4.1    Rsamtools_1.14.1  RSQLite_0.11.4    stats4_3.0.2
[10] tools_3.0.2       XML_3.95-0.2      zlibbioc_1.8.0

Yours sincerely,

Jianhong Ou

LRB 670A
Program in Gene Function and Expression
364 Plantation Street Worcester,
MA 01605

	[[alternative HTML version deleted]]

