CHANGES IN VERSION 1.20.0 ------------------------- o Bioconductor 3.18 release CHANGES IN VERSION 1.18.0 ------------------------- o Bioconductor 3.17 release CHANGES IN VERSION 1.16.0 ------------------------- o Bioconductor 3.16 release CHANGES IN VERSION 1.14.0 ------------------------- o Bioconductor 3.15 release CHANGES IN VERSION 1.12.1 ------------------------- o Fix typos CHANGES IN VERSION 1.12.0 ------------------------- o Bioconductor 3.14 release CHANGES IN VERSION 1.10.0 ------------------------- o Bioconductor 3.13 release CHANGES IN VERSION 1.8.0 ------------------------- o Bioconductor 3.12 release o added limits argument for spectrum plot x-values to harmonize color scale of multiple spectrum plots o replaced Rcpp::RcppArmadillo::sample() with now fixed Rcpp::sample() CHANGES IN VERSION 1.6.2 ------------------------- o updated paper references o fixed minor formatting issues o incremented Roxygen2 version CHANGES IN VERSION 1.6.0 ------------------------- o Bioconductor 3.11 release o changed function names to adhere to tidyverse style guide (breaking change) o change method names to adhere to tidyverse style guide (breaking change) o changed parameter names to adhere to tidyverse style guide (breaking change) o changed internal variable names to adhere to tidyverse style guide o fixed issue with mixed cached and uncached sequences o added unit tests o fixed issue with uninitialized IUPAC table o removed unused C++ functions o gracefully stop cluster after parLapply o added transcript values overlay to spectrum plots o fixed issue due to floating point machine precision o improved efficiency of transcript set shuffling o replaced Rcpp::sample() with Rcpp::RcppArmadillo::sample() to avoid memory leak o fix roxygen annotation for package data CHANGES IN VERSION 1.4.0 ------------------------- o Bioconductor 3.10 release CHANGES IN VERSION 1.2.1 ------------------------- o updated author list CHANGES IN VERSION 1.2.0 ------------------------- o Bioconductor 3.9 release CHANGES IN VERSION 1.0.2 ------------------------- o clarified return value description of k-mer-based TSMA o updated roxygen2 o updated license o clarified argument description of SPMA o fixed issue with multi-threaded cluster environment CHANGES IN VERSION 1.0.1 ------------------------- o fixed typo in vignette o added code example for drawVolcanoPlot function o increased size of circles for motif-associated k-mers in drawVolcanoPlot function CHANGES IN VERSION 1.0.0 ------------------------- o initial release on Bioconductor 3.8 release branch CHANGES IN VERSION 0.99.4 ------------------------- o initial release on Bioconductor