Changes in version 0.99.27 (2019-10-22) * Use tempdir() in test to avoid using home dir of bioconductor build machine Changes in version 0.99.26 (2019-09-23) * Use tempdir() in examples and vignette to prevent from contaminating Bioc and users' machine Changes in version 0.99.24 (2019-09-23) * Update source code for robustness Changes in version 0.99.23 (2019-09-14) * Add support for type SummarizedExperiment in function predictor() * Fix output directory problem in main function * Remove some unused functions Changes in version 0.99.22 (2019-09-06) * Fix bugs by removing lazy load Changes in version 0.99.21 (2019-09-06) * Add overwrite function for main function * Optimize packages suggested checking Changes in version 0.99.20 (2019-07-30) * Fix predictor() error by complete cases Changes in version 0.99.19 (2019-07-29) * Fix m.f.s bug when calculating centroid of new matrix Changes in version 0.99.18 (2019-07-29) * Add a choice for using kmeans() for super-clustering Changes in version 0.99.17 (2019-07-29) * Add a parameter allowing keep rows with no variance * List for centroid2exp() should not be filtered by variance Changes in version 0.99.16 (2019-07-29) * CrossICC now need R version >= 3.5 * Update ssGSEA function Changes in version 0.99.15 (2019-07-28) * CrossICC now need R version >= 3.6 * Fix NAMESPACE bug Changes in version 0.99.14 (2019-07-28) * Update vignette and man pages Changes in version 0.99.13 (2019-07-28) * Update vignette and man pages Changes in version 0.99.12 (2019-07-28) * Fix ssGSEA() bug * Remove external shiny calling function * CrossICC() can reset working directory to previous one now Changes in version 0.99.11 (2019-07-28) * Add sankey plot to shiny app * Optimize the main function Changes in version 0.99.10 (2019-07-27) * Update ssGSEA man page Changes in version 0.99.9 (2019-07-27) * Label ssGSEA examples as donttest Changes in version 0.99.8 (2019-07-27) * Update help page of function CrossICCInput(): example should contain file name pattern Changes in version 0.99.7 (2019-07-26) * Update man pages Changes in version 0.99.6 (2019-07-26) * Use all functions in reloaded MergeMaid code * To test all examples in exported function Changes in version 0.99.5 (2019-07-26) * Turn off default shiny calling Changes in version 0.99.4 (2019-07-26) * Update some man pages Changes in version 0.99.3 (2019-07-26) * Update examples for most functions * Remove random seed of ConcensusClusterPlus function Changes in version 0.99.2 (2019-07-25) * Fix some mistakes in Rd files Changes in version 0.99.1 (2019-07-25) * Main function CrossICC will not use shiny app by default * Add sankey plot * Remove some default dependencies (only needed when use shiny) * Fix some check error and warnings Changes in version 0.1.1 (2019-06-25) * Update vignette and some man pages for functions Changes in version 0.1.0 (2019-06-25) * The first version of CrossICC * Submitted to Bioconductor