3 messages · Selena Niu, David Winsemius, Ramon Diaz-Uriarte
Hi All: Has anyone analyzed Illumina 550K data using DNAcopy package? I have around 2300 samples. According to Venkatraman and Olshen 2007 paper, it needs about 25 min to run a single sample for Affymetrix 100K. I am afraid it will take too long to analyzed my data. Anybody has an idea? Thanks! Best,
View this message in context: http://www.nabble.com/DNAcopy-package-in-R-tp23158907p23158907.html Sent from the R help mailing list archive at Nabble.com.
Probably better asked on the BioC list.
Has anyone analyzed Illumina 550K data using DNAcopy package? I have around 2300 samples. According to Venkatraman and Olshen 2007 paper, it needs about 25 min to run a single sample for Affymetrix 100K. I am afraid it will take too long to analyzed my data. Anybody has an idea? Thanks!
David Winsemius, MD Heritage Laboratories West Hartford, CT
Dear Selena, You probably will want to try to run this in a computing cluster, parallelizing over samples. Best, R.
Hi All: Has anyone analyzed Illumina 550K data using DNAcopy package? I have around 2300 samples. According to Venkatraman and Olshen 2007 paper, it needs about 25 min to run a single sample for Affymetrix 100K. I am afraid it will take too long to analyzed my data. Anybody has an idea? Thanks! Best, -- View this message in context: http://www.nabble.com/DNAcopy-package-in-R-tp23158907p23158907.html Sent from the R help mailing list archive at Nabble.com.
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Ramon Diaz-Uriarte Statistical Computing Team Structural Biology and Biocomputing Programme Spanish National Cancer Centre (CNIO) http://ligarto.org/rdiaz Phone: +34-91-732-8000 ext. 3019