Dear all,

When I try to use intronsByTranscript to get introns for hg19 known genes, I found it is unacceptable slow. Does any body has the same problem?

My code:
library(GenomicFeatures)
library(TxDb.Hsapiens.UCSC.hg19.knownGene)
introns <- intronsByTranscript(TxDb.Hsapiens.UCSC.hg19.knownGene)

> sessionInfo()
R Under development (unstable) (2013-12-12 r64453)
Platform: x86_64-apple-darwin12.5.0 (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] TxDb.Hsapiens.UCSC.hg19.knownGene_2.10.1 GenomicFeatures_1.15.4
[3] AnnotationDbi_1.25.9                     Biobase_2.23.3
[5] GenomicRanges_1.15.15                    XVector_0.3.5
[7] IRanges_1.21.17                          BiocGenerics_0.9.2

loaded via a namespace (and not attached):
 [1] biomaRt_2.19.1           Biostrings_2.31.5        bitops_1.0-6             BSgenome_1.31.7
 [5] DBI_0.2-7                GenomicAlignments_0.99.9 RCurl_1.95-4.1           Rsamtools_1.15.15
 [9] RSQLite_0.11.4           rtracklayer_1.23.6       stats4_3.1.0             tools_3.1.0
[13] XML_3.98-1.1             zlibbioc_1.9.0

Yours sincerely,

Jianhong Ou

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

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