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.