Changes between Initial Version and Version 1 of Ticket #228, comment 8


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Timestamp:
Dec 3, 2013, 4:16:45 PM (10 years ago)
Author:
olle

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  • Ticket #228, comment 8

    initial v1  
    22
    33 * The desired default option for averaging method can be obtained by switching the results returned by public method `Formula.AverageMethod getAverage()` in enum class `IntensityTransform` for data flagged to be stored in untransformed, relative to transformed (log-2 or log-10) format:[[BR]][[BR]]`Formula.AverageMethod.GEOMETRIC_MEAN` for data stored in untransformed format[[BR]]`Formula.AverageMethod.ARITHMETIC_MEAN` for data stored in transformed format[[BR]][[BR]]However, since the `gerAverage()` method is used in several other classes, a thorough investigation is needed before such a change should be added, since there is a risk that functionality is broken in these other classes.
     4 * Another solution is to update class `QuantileNormalization` in private method `RequestInformation getConfiguredJobParameters()` to check the intensity transform set for the `BioAssaySet`, and select the default averaging method based on that. This makes the choice of default averaging method independent on the value of the `getAverage()` method.
     5