Changes between Version 29 and Version 30 of se.lu.onk.IlluminaSNPNormalization


Ignore:
Timestamp:
Sep 16, 2008, 11:16:48 AM (14 years ago)
Author:
markus
Comment:

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  • se.lu.onk.IlluminaSNPNormalization

    v29 v30  
    1313=== Download tQN ===
    1414
    15 [http://cbbp.thep.lu.se/~markus/software/tQN-1.0.0.zip?format=raw Download the latest stand-alone release (tQN-1.0.0)].  [[BR]]
     15[http://cbbp.thep.lu.se/~markus/software/tQN/tQN-1.0.0.zip?format=raw Download the latest stand-alone release (tQN-1.0.0)].  [[BR]]
    1616
    1717=== How to use tQN ===
     
    7272''tQN B allele frequencies and log R ratios''
    7373
    74   CNV probes are not normalized by tQN; for these probes the original X and Y intensities from !BeadStudio are kept. tQN may result in a slightly smaller number of SNPs having data. The reason for this reduction is that some SNPs have not been genotyped in the !HapMap samples used to generate the cluster files. A detailed description of how tQN X and Y intensities are turned into tQN BAF and tQN log R ratios is available [http://cbbp.thep.lu.se/~markus/software/ReadMe_calculation_BAF_Log_R_Ratio.pdf?format=raw here].
     74  CNV probes are not normalized by tQN; for these probes the original X and Y intensities from !BeadStudio are kept. tQN may result in a slightly smaller number of SNPs having data. The reason for this reduction is that some SNPs have not been genotyped in the !HapMap samples used to generate the cluster files. A detailed description of how tQN X and Y intensities are turned into tQN BAF and tQN log R ratios is available [http://cbbp.thep.lu.se/~markus/software/tQN/ReadMe_calculation_BAF_Log_R_Ratio.pdf?format=raw here].
    7575
    7676''Supported beadchip types''