Hi, I wanted to get fastq files associated with some SRA
So I was going through the following SRAdb vignettes http://bioconductor.org/packages/2.6/bioc/vignettes/SRAdb/inst/doc/SRAdb.pdf <http://bioconductor.org/packages/2.6/bioc/vignettes/SRAdb/inst/doc/SRAdb.pdf>I am able to run most of the commands except the ones in section 3.5(which I actually need) The error I am getting is getFastq (in_acc=c("SRR000648","SRR000657"), sra_con=sra_con, destdir=getwd()) Error: could not find function "getFastq" getFastq Error: object 'getFastq' not found Similarly for listFastq and getFastInfo functions I am wondering if I am missing something ? Best regards, Kirti Prakash sessionInfo() R version 2.11.1 (2010-05-31) x86_64-unknown-linux-gnu locale: [1] LC_CTYPE=en_US.iso885915 LC_NUMERIC=C [3] LC_TIME=en_US.iso885915 LC_COLLATE=en_US.iso885915 [5] LC_MONETARY=C LC_MESSAGES=en_US.iso885915 [7] LC_PAPER=en_US.iso885915 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.iso885915 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] SRAdb_1.4.1 graph_1.28.0 RSQLite_0.9-2 DBI_0.2-5 loaded via a namespace (and not attached): [1] Biobase_2.8.0 GEOquery_2.16.3 RCurl_1.4-3 tools_2.11.1 [5] XML_3.1-0 [[alternative HTML version deleted]] _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
