Hi,
I'm trying to make use of ArrayExpressHTS R package, but I hit the wall in the very beginning.
I used this tutorial An Introduction to ArrayExpressHTS.
And this is my code:
The problem is that I get some kind of unknown error from ArrayExpressHTS function:
Worst part is that it does not say what went wrong, just "Error in ArrayExpressHTS ..." and nothing else.
I'm trying to make use of ArrayExpressHTS R package, but I hit the wall in the very beginning.
I used this tutorial An Introduction to ArrayExpressHTS.
And this is my code:
Code:
# Set up external tools options('ArrayExpressHTS.fasta_formatter' = '/Applications/Bioinformatics/fastx_toolkit') options('ArrayExpressHTS.cufflinks' = '/Applications/Bioinformatics/cufflinks') options('ArrayExpressHTS.samtools' = '/opt/local/bin') options('ArrayExpressHTS.bwa' = '/Applications/Bioinformatics/bwa') options('ArrayExpressHTS.mmseq' = '/Applications/Bioinformatics/mmseq') options('ArrayExpressHTS.bam2hits' = '/Applications/Bioinformatics/mmseq') options('ArrayExpressHTS.bowtie' = '/opt/local/bin') options('ArrayExpressHTS.tophat' = '/opt/local/bin') # Load libraries library("ArrayExpressHTS") # Get data aehts <- ArrayExpressHTS("E-GEOD-16190")
Code:
> aehts <- ArrayExpressHTS("E-GEOD-16190", dir = expfolder) Fri Jan 18 18:20:21 2013 [AEHTS] Not Found. Error in ArrayExpressHTS("E-GEOD-16190") :
Comment