Biobase.TrainingData
Contents
- data TrainingData = TrainingData {
- primary :: String
- secondary :: [ExtPairIdx]
- predicted :: [ExtPairIdx]
- weight :: Double
- extendedKnowledge :: Bool
- comments :: [String]
- class MkTrainingData a where
- mkTrainingData :: a -> TrainingData
Documentation
data TrainingData Source
One training data element. We can store sequence and known structure
(primary, secondary) as well as a predicted structure (stored, if
not.null). The weight is how strongly this element should influence a
training system. extendedKnowledge is True, if the data element comes from
a source which knows about extended secondary structures, like the PDB.
Otherwise it is False.
NOTE During training, one should not penalize non-canonical predictions in interior loops and multibranch loops, unless they hinder formation of true pairs.
TODO at some point we will move toward pseudoknots and other fun
Constructors
| TrainingData | |
Fields
| |
Instances
Instance creation
class MkTrainingData a whereSource
Create TrainingData from various sources.
Methods
mkTrainingData :: a -> TrainingDataSource
Instances
| MkTrainingData RNAstrand | Import from RNAstrand data. Each annotated pair is assumed to be of type cWW. |
| MkTrainingData LinFR3D | Import from linearized FR3D data |