0.99版本的变化 ---------------------- o最初版本新特性。更改版本0.99-1 ---------------------- o修复了newSeqCountSet在处理输入实验设计时的错误。修正了计算本地FDR的错误。o增加了离散度和平均表达式之间关系的模型选项。版本1.2.0-1 ---------------------- o修正了计算本地FDR的错误。o改变处理0计数基因的方式。现在这些基因的fdr被赋值为0。---------------------- o实现了检测差异甲基化位点(DML)的方法。版本1.7.0的变化---------------------- o增加了多因素实验设计的功能。目前使用edgeR函数进行glm拟合和假设检验。 DSS only provide functions for dispersion estimation. CHANGES IN VERSION 2.0.0 ---------------------- o Implemented methods for detecting differentially methylated regions (DMR). o Modified the algorithm for computing variances with smoothing. o Add function to detect DML for general experimental design. o Add function to detect DML for general experimental design. CHANGES IN VERSION 2.5.0 ---------------------- Modify the parallel computing part in DML testing. We now use the 'mcapply' function in 'parallel' package to implement parallelization. Note that older version of DSS (<2.4x) used the 'bplapply' function in 'BiocParallel' package. However, that function somehow has significantly reduced performance in the new release (>1.25), so we switched to mcapply. A drawback is that the progress bar cannot be displayed under the paralelle computing setting.