Changes in version 1.22.0                        

Bug fixes and minor improvements

  - When the assays argument was RNASeq2Gene, curatedTCGAData would
    incorrectly include RNASeq2GeneNorm assays. Users who want to return
    both assay types should enter RNASeq2Gene* instead (with an
    asterisk).

                       Changes in version 1.14.0                        

New features

  - The version argument now allows users to select either 1.1.38 or
    2.0.1.
  - Version 2.0.1 includes RNASeq2Gene data as RSEM TPM gene expression
    values (#38, @mherberg).
  - Genomic information updated for RaggedExperiment type data objects
    where '37' is now 'GRCh37' (#40, @vjcitn).
  - Datasets (e.g., OV, GBM) that contain multiple assays that could be
    merged are now provided as merged assays (#27, @lwaldron).
  - The vignette now includes sections on how to use the
    TCGAprimaryTumors and getWithColData functions.

Bug fixes and minor improvements

  - mRNAArray assays now return matrix type data instead of DataFrame
    (#31, @lgeistlinger, @vjcitn).
  - Removed force download of GISTIC resources
  - Published article now available with citation("curatedTCGAData")

                       Changes in version 1.12.0                        

Bug fixes and minor improvements

  - Output dataset options as table when dry.run is enabled in the main
    function.
  - Check for RaggedExperiment dependency when loading data that uses
    the data representation (@vjcitn, #39)

                       Changes in version 1.10.0                        

New features

  - Control verbosity of curatedTCGAData function with the verbose
    argument (@lgeistlinger, #35)
  - Fallback added for when ExperimentHub service is offline (@vjcitn,
    #36)
  - Data export section added to main vignette due to new features in
    MultiAssayExperiment

                        Changes in version 1.8.0                        

Bug fixes and minor improvements

  - Add a caveats section for working with TCGA data in the vignette
    (@vjcitn suggest)
  - Provide examples for TCGAutils::TCGAsampleSelect in the vignette

                        Changes in version 1.6.0                        

New features

  - Methylation data represented as a DelayedMatrix with associated HDF5
    files within a SummarizedExperiment object. They can be downloaded
    using the Methyl* assay keyword.
  - Big changes to documentation with table added for detailing
    ExperimentList data types (thanks to @lgeistlinger)
  - Vignette now includes some helper functions provided by TCGAutils

Bug fixes and minor improvements

  - TCGAutils is available for use with curatedTCGAData
  - 'GISTIC_Peak' datasets are force downloaded due to caching mechanism
    issues
  - Issue of missing 'GISTIC' data for LAML and SKCM due to incorrect
    file links has been resolved (#29 @pcheng84)
  - Updated data documentation

                        Changes in version 1.4.0                        

New features

  - dry.run argument in curatedTCGAData returns a list of metadata file
    matches

Bug fixes and minor improvements

  - Main function now uses the MultiAssayExperiment constructor function

                        Changes in version 1.2.0                        

New features

  - Released to Bioconductor
  - Supports multiple cancers with auto-merge of colData
  - Added full list of data types

Bug fixes and minor improvements

  - Code clean up (helper functions)
  - Use metadata in main function to return list of datasets

                       Changes in version 0.99.38                       

New features

  - Updated curatedTCGAData function
  - Supports multiple cancers
  - Includes curated colData datasets
  - Updated vignette, documentation from new builds
  - Updated metadata from pipeline

Bug fixes and minor improvements

  - Updated NAMESPACE and DESCRIPTION
  - Included test for number of resources in EH and in metadata
  - Improved input handling of main function

                        Changes in version 0.2.0                        

Bug fixes and minor improvements

  - Updated DESCRIPTION file to reflect authorship.
  - Progress towards submission to ExperimentHub

                        Changes in version 0.1.0                        

  - Added a NEWS file to track changes to the package.