Changes between Version 26 and Version 27 of se.lu.onk.BAFsegmentation


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Timestamp:
Oct 17, 2008, 4:51:32 PM (9 years ago)
Author:
markus
Comment:

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  • se.lu.onk.BAFsegmentation

    v26 v27  
    105105''Results''
    106106
    107   The segmented regions identified as allelic imbalance are stored in the file ''AI_regions.txt'' in the BAFsegmentation subdirectory ''segmented''. In addition an xml-file ''AI_regions.xml'' with the regions is also produced. This xml-file can be imported as a bookmark file into the Illumina !BeadStudio software for visualization and further analysis of the identified regions.
     107  * The segmented regions identified as allelic imbalance are stored in the file ''AI_regions.txt'' in the BAFsegmentation subdirectory ''segmented''. In addition an xml-file ''AI_regions.xml'' with the regions is also produced. This xml-file can be imported as a bookmark file into the Illumina !BeadStudio software for visualization and further analysis of the identified regions.
    108108
    109   In the BAFsegmentation subdirectory ''plots'', the following postscript files are generated:
     109  * In the BAFsegmentation subdirectory ''plots'', the following postscript files are generated:
    110110    * A file for each sample with three plots per chromosome: a BAF plot with non-informative homozygous SNPs removed, an mBAF plot with non-informative homozygous SNPs removed and with superimposed segmentation line, and a log R ratio plot with all SNPs with average log R ratios within mBAF segments superimposed.
    111111    * A file for each sample with two plots for the whole genome: a plot with segmented mBAF and a plot with average log R ratios within mBAF segments.