Hi All
I have recently started to acquaint my self with new R packages for NGS
data processing/analysis. I think the community has done a great work
in developing these packages. I must say I am amazingly surprised to see
some of the capabilities.
I have a quick comment. While playing with ShortRead package I am not
able to successfully load the export file even one for that matter. I am
using a single PC to do this . I belv it has It has sufficient memory
(4 GB) to handle one lane of data. I waited for 15-18 minutes before my
pc started to show sign of sickness. I eventually had to kill the
process.
Here is wat I did.
Library(ShortRead)
sp=SolexaPath("/local/seq_archive/solexa/090309_HWI-EAS397_0006")
path=analysisPath(sp)[4] ### I just wanted to look at one GERALD
folder.
aln=readAligned(path,type="SolexaExport","s_6_export.txt")
GOT STUCK HERE
Is there anything I am doing the wrong way. Please let me know.
Cheers,
-Abhi
-----------------------------
Abhishek Pratap
Bioinformatics Software Engineer
Institute for Genome Sciences <http://www.igs.umaryland.edu/>
School of Medicine, Univ of Maryland
801, W. Baltimore Street, Baltimore, MD 21209
Ph: (+1)-410-706-2296
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