************************************************** * 1.0系列新闻 * ************************************************** 第一个包版本。更新的消息和详细信息将在未来的版本中添加到此文件。pvals函数修改为包含对空分布建模的选项。链接到arXiv报告中添加的插图。1.0.2 -并行版本(通过M3D_Para函数)添加。小插图中添加了生物信息学论文的链接。1.3.3 -根据BiSeq中底层rrbs()函数的变化，修复readENCODEdata中的错误。这对工作流没有影响。1.3.4 readENCODEdata的更新手册页，以考虑以前的更新1.3.6优化代码，以加快进程。现在，它的运行速度大约是原来的5倍，并行实现明显更好。 1.3.9 Minor speed ups. 1.7.4 Major speedups to main functions. ‘lite’ functions introduced, which are faster and save memory. See the vignette for details. 1.7.5 - 1.7.10 Fixes to pass Bioconductor checks, no changes in workings of package 1.7.11 Added readBedFiles function to read in the different styles of bed file. This replaces readENCODEdata. For the same results, use readBEDFiles with bed_type=‘Encode’ (the default). Details are in the vignette. Also added an error check so that if the files are read in an order that cannot be processed later, an error is called before any work is done. 1.7.12 Added outlier detection to the pvals and pvals_lite functions. This tests for highly variable regions in the null distribution and excludes them from further analysis. Please see the vignette. 1.9.1 Bug fix for readBedFiles. Thanks to Francesca Cairoli of the University of Trieste for the feedback. 1.9.2-3 Removed parallel function due to incompatibility with Windows. I am investigation a cross platform solution in the meantime. Due to speed ups, the sequential ‘lite’ function should be fast enough for all practical needs.