NEWS
RaggedExperiment 1.28.0
New features
- Added citation information to the vignette and package. See
citation(package = "RaggedExperiment")
RaggedExperiment 1.26.0
New features
RaggedExperiment 1.24.0
Bug fixes and minor improvements
- Use full argument names in unit tests.
- Invoke
colSums from MatrixGenerics in unit tests.
RaggedExperiment 1.22.0
New features
- Add
as.list and as.data.frame methods to RaggedExperiment to facilitate
extraction of mcols and conversion to table format, respectively.
RaggedExperiment 1.18.0
New features
- Sparse matrices of
dgCMatrix type can now be coerced to RaggedExperiment
when rownames are coercible to GRanges
Bug fixes and minor improvements
- 'counts' set as the default name for the values in
mcols after coercion
from dgCMatrix
RaggedExperiment 1.16.0
New features
sparseAssay and compactAssay now support sparseMatrix outputs from the
Matrix package
RaggedExperiment 1.14.0
Bug fixes and minor improvements
- Update package to changes in
MatrixGenerics (new location of the
rowRanges generic)
RaggedExperiment 1.12.0
Bug fixes and minor improvements
- Adjust to changes from
SummarizedExperiment::assay (withDimnames argument)
- Reference
simplifyTCGA helper function from TCGAutils in examples
- Restore original real-world
qreduceAssay example and include alternative
qreduceTCGA example
RaggedExperiment 1.10.0
Bug fixes and minor improvements
- Include reference to
TCGAutils functions for qreduceAssay examples
- Add robustness to
RaggedExperiment constructor including unit tests
- Include class and assay operations overview schematic in the vignette
RaggedExperiment 0.0.24
New features
RaggedExperiment vignette now available.- Submission to
Bioconductor/Contributions issue tracker
RaggedExperiment 0.0.21
New Features
- Software for copy number, mutation, and other ragged array data representations
RaggedExperiment class and basic methods: subsetting, dimnames, etc.- Assay methods expose a particular metadata column and creates a retangular matrix
- Coerce functions from
RaggedExperiment to SummarizedExperiment class available