September 6, 2022
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Allow mix of categorical and numeric variables in coxPH

Ellis Patrick authored on 06/09/2022 23:36:21
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export colCoxTests

Ellis Patrick authored on 06/09/2022 22:57:36
September 5, 2022
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Update crossValidate.R

Ellis Patrick authored on 05/09/2022 22:40:24 • GitHub committed on 05/09/2022 22:40:24
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Update utilities.R

Ellis Patrick authored on 05/09/2022 06:03:37 • GitHub committed on 05/09/2022 06:03:37
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Update crossValidate.R

Ellis Patrick authored on 05/09/2022 03:27:01 • GitHub committed on 05/09/2022 03:27:01
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Update crossValidate.R

Ellis Patrick authored on 05/09/2022 03:26:43 • GitHub committed on 05/09/2022 03:26:43
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Update crossValidate.R

Ellis Patrick authored on 05/09/2022 03:16:57 • GitHub committed on 05/09/2022 03:16:57
September 2, 2022
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- train methods now exported and can be used. train generic imported from generics package. - simple params now have performanceType specified. - Fixes to training with multiple views but no aggregation. - Fix to parameter tuning in .doTrain.

Dario Strbenac authored on 02/09/2022 06:10:10
August 31, 2022
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- train and predict functions created to allow training and prediction to be done independently. But they have the capabilities of crossValidate, such as multi-view methods. Implemented as S3 methods to work well with existing generics defined by R. - runTest, runTests and crossValidate now all utilise prepareData and allow passing in extra parameters for it. - getLocationsAndScales becomes private function. - All reference to targets parameter converted to useFeatures, which allows both the assay and the feature to be specified, rather than only the assay. - .MAEtoWideTable data flattening function is gone. Its functionality is incorporated into prepareData. - Parameter tuning in .doSelection of resubstitution mode now correctly uses training data as the test data instead of accidentally using the testing data.

Dario Strbenac authored on 31/08/2022 11:45:02
August 25, 2022
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- getFeatures functions added to simple params settings to extract selected features from within trained model where relevant. - Nearest Shrunken Centroid added as a simple params function and a classifier keyword option.

Dario Strbenac authored on 25/08/2022 05:15:03
August 24, 2022
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Merge branch 'master' of

Dario Strbenac authored on 24/08/2022 11:07:28
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- All mcols prefixed with S4Vectors for Windows.

Dario Strbenac authored on 24/08/2022 11:06:23
August 23, 2022
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Update rankingDifferentMeans.R

Ellis Patrick authored on 23/08/2022 21:22:56 • GitHub committed on 23/08/2022 21:22:56
August 22, 2022
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- Fixed remainder of old-format parameter construction in examples and a couple of typos.

Dario Strbenac authored on 22/08/2022 05:30:05
August 21, 2022
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- Restored runTest, runTests, ModellingParams, CrossValParams as public documented functions. Vignette also restored to explain them. - Constructors for params now expect a character keyword which is then converted into a function internally.

Dario Strbenac authored on 21/08/2022 16:07:38