August 14, 2022
Viewd37fb9c5

- Classifiers and feature selection functions no longer have multiple signaures and are private. - prepareData function to filter and subset input data using common ways, such as missingness and variability. - The variable renaming and storage in Original Feature and Renamed Feature reverted back to column metadata and assay / feature colums. - sampleInfo now reverted back to clinical.

Dario Strbenac authored on 14/08/2022 23:45:28
August 9, 2022
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Update utilities.R

Ellis Patrick authored on 09/08/2022 08:21:20 • GitHub committed on 09/08/2022 08:21:20
August 2, 2022
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Update utilities.R

Ellis Patrick authored on 02/08/2022 05:05:50 • GitHub committed on 02/08/2022 05:05:50
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Merge branch 'master' of https://github.com/SydneyBioX/ClassifyR

Dario Strbenac authored on 02/08/2022 04:00:15
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Fix for function not found if SnowParam parallelisation used.

Dario Strbenac authored on 02/08/2022 04:00:10
Vieweb01afff

Update utilities.R

Ellis Patrick authored on 02/08/2022 02:47:02 • GitHub committed on 02/08/2022 02:47:02
July 22, 2022
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- Recently added assayName parameter removed from crossValidate (use characteristicsLabel instead). - All references to outcomes now use outcome instead.

Dario Strbenac authored on 22/07/2022 12:00:33
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- crossVaildate now allows input of assay name for a single data table. - References to data set have been replaced by assay to remove ambiguity.

Dario Strbenac authored on 22/07/2022 10:30:06
July 15, 2022
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- calcPerformance gains a Sample C-index option to calculate a C-index for each individual. - .splitDataAndOutcomes fix for survival object creation.

Dario Strbenac authored on 15/07/2022 06:00:02
July 13, 2022
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- Variable importance updated for new feature and dataset safe renaming. - Documentation of ranking functions updated to explain that they now return indices, not identifiers. - Ensemble feature selection in .doSelection fixes for newer format of runTest parameters. - crossValidate updated for safe renaming.

Dario Strbenac authored on 13/07/2022 11:30:39
July 12, 2022
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- Data sets and feature names are converted into safe names such as Dataset1 and Feature1 for use inside of feature selection and classification functions. ClasifyResult class gains a featuresInfo slot which stores original identifiers as well as sanitised ones. - elasticNetPreval defunct parameter set removed.

Dario Strbenac authored on 12/07/2022 14:35:03
June 30, 2022
View545a691d

Parameter tuning in .doTrain fixed. - drop FALSE added to crossValidate.

Dario Strbenac authored on 30/06/2022 03:50:02
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- Data table splitting made robust to single predictor input.

Dario Strbenac authored on 30/06/2022 01:57:51
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- Check for nFeatures too large also added to runTest and runTests. - Check for undesired replicates added to all cross-validation entry points.

Dario Strbenac authored on 30/06/2022 01:06:08
May 11, 2022
View805a970f

- Score return values fixed for k-TSP and naive Bayes classifiers. - runTest matrix method fixed to also convert test data to a DataFrame. - runTest returned predictions data frame fixed. - class equality check for outcomes replaced by is.character check.

Dario Strbenac authored on 11/05/2022 05:30:49