NEWS

CHANGES IN VERSION 1.4.8
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- fixed bug in lolliplot introduced by ensembl server changes

CHANGES IN Version 1.4.7
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- patch to fix possible conflicts between the rmvSilent=T and fileType="custom" parameter in waterfall()

CHANGES IN Version 1.4.6
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- fixed typo with new feature in cnFreq

CHANGES IN VERSION 1.4.5
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- fixed issue where plot would not render/take awhile for functions requiring a genome and using hg38
- Dramatically increased performance of cnFreq()
- cnFreq() no longer requires genomic segments to be identical across samples
- cnFreq() can now selectively plot chromosomes
- cnFreq() can now plot both frequency/proportion regardless of data input type

CHANGES IN VERSION 1.4.4
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- fixed bug where incorrect cell labels were overlayed with proper ones when removing silent mutations

CHANGES IN VERSION 1.4.3
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- fixed bug in cnFreq where cnFreq would produce an error (improperly) when looking for consistent windows

CHANGES IN VERSION 1.4.2
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- fixed bug caused by updates to gridExtra when using genCov

CHANGES IN VERSION 1.4.1
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- patch to fix alignments due to ggplot2 update

CHANGES IN VERSION 1.4.0
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- Added new functionality to waterfall()
- Transitions and transverions can be plotted as a waterfall subplot
- mutation type proportions can now be plotted as a waterfall subplot
- minor bug fixes to waterfall