4 | | 2. A flag indicating if stored data was untransformed, stored as log-2, or log-10 values, was introduced in BASE Ticket [http://base.thep.lu.se/ticket/1120 #1120] (The dynamic part of BASE should keep track whether intensity data is in log space or not). See this ticket for a lengthy discussion on the use and storage of transformed data in BASE. Some additions were:[[BR]][[BR]]a. A `BioAssaySet` has a `getIntensityTransform()` method that returns an `IntensityTransform` `enum` object, whose public `Formula.AverageMethod getAverage()` method returns `Formula.AverageMethod.ARITHMETIC_MEAN` or `Formula.AverageMethod.GEOMETRIC_MEAN`.[[BR]]b. Class `VirtualColumn` was extended with static methods `VirtualColumn channelIntensity(int channel)` and `VirtualColumn channelRaw(int channel)`. The former performs a reverse transformation, determined by the transformation flag, in order to return untransformed data, while the latter returns data the way it was stored in the database, i.e. data in log-2 and log-10 format is returned in that format.[[BR]][[BR]] |
| 4 | 2. A flag indicating if stored data was untransformed, stored as log-2, or log-10 values, was introduced in BASE Ticket [http://base.thep.lu.se/ticket/1120 #1120] (The dynamic part of BASE should keep track whether intensity data is in log space or not). See this ticket for a lengthy discussion on the use and storage of transformed data in BASE. Some additions were:[[BR]][[BR]]a. A `BioAssaySet` has a `getIntensityTransform()` method that returns an `IntensityTransform` `enum` object, whose public `Formula.AverageMethod getAverage()` method returns `Formula.AverageMethod.ARITHMETIC_MEAN` or `Formula.AverageMethod.GEOMETRIC_MEAN`.[[BR]]b. Class `VirtualColumn` was extended with static methods `VirtualColumn channelIntensity(int channel)` and `VirtualColumn channelRaw(int channel)`. The former performs a reverse transformation if needed, determined by the transformation flag, in order to return untransformed data, while the latter returns data the way it was stored in the database, i.e. data in log-2 and log-10 format is returned in that format.[[BR]][[BR]] |