BSgenome data loading problem for applying in biostrings package function
I installed BSgenome seems working but I am not able to load library. The following code are from Biostrings package
> require(BSgenome)
> require(Biostrings)
> library(BSgenome.Dmelanogaster.UCSC.dm3)
开发者_StackOverflow Error in library(BSgenome.Dmelanogaster.UCSC.dm3) :
there is no package called 'BSgenome.Dmelanogaster.UCSC.dm3'
> subject <- Dmelanogaster$chr3R
Error: object 'Dmelanogaster' not found
> Lpattern <- "AGCTCCGAG"
> Rpattern <- "TTGTTCACA"
> matchLRPatterns(Lpattern, Rpattern, 500, subject) # 1 match
Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "matchLRPatterns", for signature "standardGeneric"
I will appreciate your help. Can you try in your computer to see if this works for your? what could be potential problem.
Thanks to Roman Lustrik the following codes works:
source("bioconductor.org/biocLite.R";)
biocLite("BSgenome.Dmelanogaster.UCSC.dm3")
library(BSgenome.Dmelanogaster.UCSC.dm3)
subject <- Dmelanogaster$chr3R
Lpattern <- "AGCTCCGAG"
Rpattern <- "TTGTTCACA"
matchLRPatterns(Lpattern,
Rpattern, 500, subject) # 1 match
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