NEWS

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BEclear 2.13.2 (2022-09-21)

• fixed issue with tests
• fixed issue with folders

BEclear 2.11.1 (2022-03-31)

• replaced dependency outliers with dixonTest

BEclear 2.7.1 (2020-11-03)

• fixed some warnings from R Check and BiocCheck

BEclear 2.3.1 (2020-03-18)

• added helpful output in case the gradient descent diverges

BEclear 2.1.4 (2019-05-17)

• minor changes

BEclear 2.1.3 (2019-05-13)

• Performance improvments o regarding function calcSummary o and calcScore

BEclear 2.1.2 (2019-05-10)

• New feature o y-axis in boxplot function can now be logged

BEclear 2.1.1 (2019-05-09)

• New feature o Implementation of outlier detection

BEclear 2.0.0 (2019-04-30)

• Code refactoring o Simplification of the source code o Changes to the API o Extraction of the preprocessing function o loss function is now exported o renaming of functions o Combination of calcPvals and calcMedians methods into one
• Documentation o Update of the README o New Vignette
• Serial execution of the methods is now the default
• Performance improvments o Usage of RCPP for further performance improvements
• Change from GPL-2 to GPL-3 license
• Removing of deprecated functions
• Tests o Implementation of further tests

BEclear 1.13.11 (2018-10-25)

• Tests o Implementation of further tests

BEclear 1.13.10 (2018-10-24)

• Tests o Test for the gdepoch function
• Code refactoring o Simplification of the source code
• Performance improvements

BEclear 1.13.9 (2018-10-23)

• Tests o Test for the loss function
• Code refactoring o Simplification of the source code

BEclear 1.13.8 (2018-10-22)

• New feature o First implementation of tests with testthat
• Code refactoring o Simplification of the source code

BEclear 1.13.7 (2018-10-10)

• Bug fixes

BEclear 1.13.6 (2018-10-05)

• Bug fixes o Some minor issues with the calculation of p-values are fixed

BEclear 1.13.5 (2018-10-04)

• New feature o Checks for the validity of inputs added
• Performance improvements

BEclear 1.13.4 (2018-10-02)

• Performance improvements

BEclear 1.13.3 (2018-09-28)

• Change of dependencies o Usage of data.table for various functions for performance improvement
• Code refactoring o Simplification of the source code

BEclear 1.13.2 (2018-09-27)

• Bug fixes o p-values couldn't be calculated for a gene with only missing values in a batch (#1)

BEclear 1.13.1 (2018-09-25)

• Change of dependencies o BEclear uses now BiocParallel instead of snowfall for parallelisation o roxygen2 is now used for the generating the documentation
• Code refactoring o Internal functions got extracted o Methods have now all their own files
• Bug fixes
• Performance improvements

BEclear 1.0.0

• Release with Bioconductor version 3.1

BEclear 0.99.0

• Submitted to Bioconductor