Return of "I'm sorry, I do not know about chip type (foo)"
0
0
Entering edit mode
Dave Jacoby ▴ 20
@dave-jacoby-2272
Last seen 10.1 years ago
I've been trying to get a number of chips to work with the Affy modules. I found the fix for simpleaffy, adding lines to the *.tab files in simplaffy/data, in the list archives. (https://stat.ethz.ch/pipermail/bioconductor/2007-February/016033.ht ml) Using the techniques listed, I got wheatcdf to work and have sent the added lines to the maintainer. I have added the lines for chickencdf, but I receive the "I don't know about chip type: chickencdf" error. I am at a loss, as I have done everything for chickencdf that I have for wheatcdf, with different result. alpha.tab: "chickencdf" 0.05 0.065 qc.probes.tab: "chickencdf" "AFFX-Gga-actin-3_at" "AFFX-Gga-actin- M_at" "AFFX-Gga-actin-5_a_at" "AFFX-Gga-gapdh-3_a_at" "AFFX-Gga-gapdh- 5_a_at" "AFFX-Gga-gapdh-M_a_at" "NA" "NA" "NA" "NA" "NA" "NA" spikes.tab: "chickencdf" "AFFX-Gga-r2-Ec-bioB-3_at" "AFFX-Gga-r2-Ec-bioB-5_at" "AFFX-Gga-r2-Ec-bioC-3_at" "AFFX-Gga-r2-P1-cre-3_s_at" attached base packages: [1] "splines" "tools" "stats" "graphics" "grDevices" "datasets" [7] "utils" "methods" "base" other attached packages: chickencdf affyPLM affydata RColorBrewer simpleaffy genefilter "1.16.0" "1.12.0" "1.11.2" "0.2-3" "2.10.31" "1.14.1" survival limma gcrma matchprobes affy affyio "2.31" "2.10.5" "2.8.1" "1.8.1" "1.14.2" "1.4.0" Biobase "1.14.0" Thanks for any guidance you can give. -- David Jacoby jacoby at purdue.edu Purdue Genomics Facility S049, WSLR building Phone: hah!
Survival cdf affydata limma gcrma matchprobes affyPLM simpleaffy Survival cdf affydata • 1.1k views
ADD COMMENT

Login before adding your answer.

Traffic: 319 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6