Hi All, I have been looking at extracting raw data for core transcripts from HuEx-1_0-st-v2 chip type. I have downloaded the custom CDF file provided in http://www.aroma-project.org/node/122.
chipType <- "HuEx-1_0-st-v2" cdf <- AffymetrixCdfFile$byChipType(chipType, tags="core") print(cdf) AffymetrixCdfFile: Path: annotationData/chipTypes/HuEx-1_0-st-v2 Filename: HuEx-1_0-st-v2,core.cdf Filesize: 32.00MB Chip type: HuEx-1_0-st-v2,core RAM: 0.00MB File format: v4 (binary; XDA) Dimension: 2560x2560 Number of cells: 6553600 Number of units: 22010 Cells per unit: 297.76 Number of QC units: 0 How can I access these 22010 units (transcripts) and extract un normalized intensity values? If I use: getCellIndices(cdf, unlist=TRUE, useNames=FALSE), I am getting intensity data for 893395 probes. Thanks in advance. Best regards, Anbarasu -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/
