Changes between Version 1 and Version 2 of DIGEAnalyzer


Ignore:
Timestamp:
Sep 18, 2008, 4:10:23 PM (14 years ago)
Author:
olle
Comment:

Extension title "Convert files" changed to "Convert file[s]".

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  • DIGEAnalyzer

    v1 v2  
    33The effects of protein-specific dye-effects should be taken into account when analyzing sets of DiGE gels for optimal results. The method described by [http://www3.interscience.wiley.com/cgi-bin/abstract/116837870/ABSTRACT Krogh et al in Proteomics 2007] has been integrated into Proteios. The analysis software is described at [http://bioinfo.thep.lu.se/digeanalyzer.html the DIGEanalyzer home page].
    44
    5 Proteios provides conversion of Decyder BVA XML files to the DIGEanalyzer input format. Upload the BVA file to your Proteios server. Then check the check box and select Extensions->Convert files->Decyder BVA to DIGE Analyzer converter. A .txt file with the same name as the XML file will be written to the same directory as the BVA XML was found in.
     5Proteios provides conversion of Decyder BVA XML files to the DIGEanalyzer input format. Upload the BVA file to your Proteios server. Then check the check box and select Extensions->Convert file[s]->Decyder BVA to DIGE Analyzer converter. A .txt file with the same name as the XML file will be written to the same directory as the BVA XML was found in.
    66
    77The conversion plugin will look for grouping information if it has been entered for the samples that were used for the gels. To ensure this, you should upload the gel images and add the sample tracking information from samples -> extracts -> labeled extract-> separations -> scanning. The top level sample and extract should be annotated with the annotation "group". This group annotation is added to the DIGE analyzer .txt file by the conversion plugin. If it cannot be found, the group information is instead retained from the Decyder BVA file.