[Bioc-devel] Rsamtools scanTabix Method Dispatch
Dario Strbenac
D.Strbenac at garvan.org.au
Fri Dec 16 01:00:11 CET 2011
Hello,
This looks like a bug.
library(Rsamtools)
gr <- GRanges("chr1", IRanges(1, 999999999))
txs <- scanTabix("http://savantbrowser.com/data/hg18/hg18.refGene.gz", param = gr)
Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "scanTabix", for signature "TabixFile", "missing"
I have Rsamtools_1.6.2 in R version 2.14.0 (2011-10-31)
One more related question. Is it possible to get all records from a tabix file without looping over each chromosome and collapsing the list at the end ?
--------------------------------------
Dario Strbenac
Research Assistant
Cancer Epigenetics
Garvan Institute of Medical Research
Darlinghurst NSW 2010
Australia
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