Changes between Version 1 and Version 2 of Ticket #228, comment 9


Ignore:
Timestamp:
Dec 4, 2013, 10:48:51 AM (10 years ago)
Author:
olle

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #228, comment 9

    v1 v2  
    11Problem discussion update:
    22
    3  * BASE Ticket [http://base.thep.lu.se/ticket/1792 #1792] (Incorrect average method specified in !IntensityTransform) switched 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 (see changeset [http://base.thep.lu.se/changeset/6364 [6564]]):[[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]]This would solve the problem with wrong default averaging method being shown for `QuantileNormalizer`. However, there are benefits letting the plug-in itself determine the default averaging method, based on the intensity transform information the `BioAssaySet` to work on.
     3 * BASE Ticket [http://base.thep.lu.se/ticket/1792 #1792] (Incorrect average method specified in !IntensityTransform) switched 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 (see changeset [http://base.thep.lu.se/changeset/6364 [6564]]):[[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]]This would solve the problem with wrong default averaging method being shown for `QuantileNormalizer`. However, there are benefits letting the plug-in itself determine the default averaging method, based on the intensity transform information for the `BioAssaySet` to work on.
    44