Entering edit mode
Hej Bioc!
When I want to get the alphabetByCycle for an AAStringSet, I get
"Error in alphabetByCycle(aa) : unknown class ?AAString?".
Here is a toy example:
> aa <- AAStringSet(c("ARN","DCQ"))
> aa
A AAStringSet instance of length 2
width seq
[1] 3 ARN
[2] 3 DCQ
> alphabetByCycle(aa)
Error in alphabetByCycle(aa) : unknown class ?AAString'
My sessionInfo()
R version 3.0.2 (2013-09-25)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=C
LC_COLLATE=C LC_MONETARY=C LC_MESSAGES=C
[7] LC_PAPER=C LC_NAME=C LC_ADDRESS=C
LC_TELEPHONE=C LC_MEASUREMENT=C LC_IDENTIFICATION=C
attached base packages:
[1] parallel stats graphics grDevices utils datasets
methods base
other attached packages:
[1] RColorBrewer_1.0-5 ShortRead_1.20.0 Rsamtools_1.14.2
lattice_0.20-24 GenomicRanges_1.14.0 Biostrings_2.30.0
[7] XVector_0.2.0 IRanges_1.20.0 BiocGenerics_0.8.0
loaded via a namespace (and not attached):
[1] Biobase_2.22.0 bitops_1.0-6 grid_3.0.2
hwriter_1.3 latticeExtra_0.6-26 stats4_3.0.2
[7] tools_3.0.2 zlibbioc_1.8.0
Cheers,
Nico
---------------------------------------------------------------
Nicolas Delhomme
Nathaniel Street Lab
Department of Plant Physiology
Ume? Plant Science Center
Tel: +46 90 786 7989
Email: nicolas.delhomme at plantphys.umu.se
SLU - Ume? universitet
Ume? S-901 87 Sweden