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NEWS
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NEWS
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CHANGES IN VERSION 0.99.18
------------------------
* Updated author information in the vignette
CHANGES IN VERSION 0.99.17
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* Updated NEWS formatting
* Edited DESCRIPTION to SingleCellExperiment R package
* Updated information in the vignette
CHANGES IN VERSION 0.99.16
------------------------
* Added getCirclize()
CHANGES IN VERSION 0.99.15
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* Modified numerator for index function
CHANGES IN VERSION 0.99.14
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* Removed bracket from indexing function
CHANGES IN VERSION 0.99.13
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* Added exportTable to remaining viz functions
* Modified morisita index to correct error
CHANGES IN VERSION 0.99.12
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* Reducing the size of the screp_example to fulfill < 5 mB requirement. Randomly samples 100 cells and removed RNA counts from Seurat object
CHANGES IN VERSION 0.99.11
------------------------
* Updated compareClonotype to allow for clonotype comparisons
CHANGES IN VERSION 0.99.10
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* Bioconductor did not detect the version update.
CHANGES IN VERSION 0.99.9
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* Bioconductor had no love - changed the Seurat package to imports instead of required, see if that will address the compiling issue that results in a killed: 9 error.
CHANGES IN VERSION 0.99.8
------------------------
* Passed checks on system, let's see how much bioconductor hates it
CHANGES IN VERSION 0.99.7
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* But really this time, changed the colData import
CHANGES IN VERSION 0.99.6
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* Changed colData import
CHANGES IN VERSION 0.99.5
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* Added screp_example data to package
* Added visVgene function for visualizing the distribution of V genes in TCR
* Added support for monocle to combineExpression function
* Updated documentation for combineTCR() and combineBCR()
* Updated documentation to utilize SingleCellExperiment formats
* Updated Vignette to utilize SingleCellExperiment formats
* Added Author information to vignette
* Add intro and conclusion to vignette
* Removed html knitted vignette
* Removed descriptive code snippets
CHANGES IN VERSION 0.99.4
------------------------
* Modified expression2List() to allow for variables across meta data
CHANGES IN VERSION 0.99.1
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* Changed R (>= 3.6) to R (>= 4.0)
CHANGES IN VERSION 0.99.0
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* Changed DESCRIPTION version to 0.99.0
* Removed file seurat_example.rda, accidentally committed
* Deleted git attributes
* reduced Seurat object size for alluvialClonotype in vignette
* Changed the alluvialClonotype assessment to account for only 1 condition
CHANGES IN VERSION 1.2.3
------------------------
* Changed the access of the sample data to github.io repo:
readRDS(url("https://ncborcherding.github.io/vignettes/scRepertoire_example.rds"))
CHANGES IN VERSION 1.2.2
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* Removed Startrac-based functions in order to pass build on Bioconductor.
DEPRECATED AND DEFUNCT
* Deprecate StartracDiversity()
CHANGES IN VERSION 1.2.0
------------------------
The first version of scRepertoire submitted to Bioconductor.
SIGNIFICANT USER-VISIBLE CHANGES
* Added support for SingleCellExperiement format.
DEPRECATED AND DEFUNCT
* Deprecate combineSeurat in favor or combineExpression().
* Deprecate seurat2List in favor of expression2List().