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, 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]] |