释放coseq包的历史 ======================================== 1.15.1 coseq版本——1.15.6——改进的文档在装饰图案,尤其是faq。(感谢Florian Rocher, David Roux和Jessica Keffer提出的导致这些澄清的问题)-修复了并行计算为泊松混合模型和K-means提供种子参数时观察到的不可再现性。(感谢Océane Cassan的错误报告)coseq VERSION 1.13.1 - 1.13.2 -调整绘图功能，以删除ggplot2警告。(感谢Praveen Kumar的拉请求)—添加选项，删除框图中的红线与add_lines参数。(感谢Marie-Laure Martin-Magniette的建议)—通过新的种子参数为正常混合模型的可重现结果设置种子时修复行为。coseq VERSION 1.7.1 - 1.7.3—在DESCRIPTION中添加ImmunoOncology到biocViews—当估计的高斯混合模型的子集具有奇异协方差矩阵时，添加信息性错误消息。-为plot函数添加泛型——在DESCRIPTION中指定UTF-8编码。小插图和文档的小更新。coseq VERSION 1.5.2—修复了在绘图函数中n_row和n_col的使用，并修复了在coseq绘图中，当数据在每个条件下具有不平衡的复制数量时的错误。 (Thanks to Yuguo Xiao for the bug report.) -- Remove dependency on gridExtra package (previously the use of n_row and n_col In plotting used marrangeGrob, but this is now directly dealt with using ggplot2). -- Update vignette to illustrate how to customize coseq plots via ggplot2. coseq VERSION 1.5.1 -- Clarify in documentation that normalization can be suppressed by setting normFactors = "none" in coseq. (Thanks to David Rangel for many helpful discussions.) -- K-means can now be run for less than 10 models without provoking an error; however, a message appears to inform user that model selection via capushe is not possible (and the largest model is automatically selected). -- Updated citations. -- The coseq plot function now has the argument collapse_rows, which can take the values c("none", "sum", "average"). When collapse_rows = "sum", the plot behaves the same as when average_over_conds = TRUE , and profiles for replicates within a condition are summed. When collapse_rows = "average", values for replicates are averaged; this behavior may be preferable for highly unbalanced designs. (Thanks to Gosia Komor for the idea.) coseq VERSION 1.3.2 -- Added some clarification in the documentation of coseq, especially to clarify that genes should be in rows and samples in columns. -- Added some checks/warnings for “normal” vs “Normal”, applying transformations to profiles -- Updated maintainer email coseq VERSION 1.1.3 -- Corrected error causing failing test for compareARI function when a matrix of non-discrete and/or non-positive values was provided. coseq VERSION 0.99.8 - 0.99.12 -- Add Fietz et al. (2012) data to package -- Add in K-means algorithm functionality and conditional probability calculation. -- Add flexibility in graph options (output ggplot object from function, xlab, ylab, use_sample_names, optional facet labeling) -- Updated vignette and citation info. coseq VERSION 0.99.5 -- Add unit tests, remove static vignette. coseq VERSION 0.99.1 -- Fairly significant changes to address Bioconductor reviewer comments. In particular, the package now makes use of S4 classes and methods: a new S4 class, coseqResults, has been created to extend the RangedSummarizedExperiment S4 class from the SummarizedExperiment package. coseq VERSION 0.1.x - 0.99.0 -- Initial development version of coseq.