monocle2安装笔记【技巧】

教程：https://lishensuo.github.io/posts/bioinfo/008单细胞分析工具--monocle轨迹分析/

关于monocle包的安装(20230311)
最近使用monocle包的orderCells() 函数出现了问题，发现有人已在github提出了相应的解决方案，并提供了更新后的包的源代码。

https://github.com/cole-trapnell-lab/monocle-release/issues/434 https://github.com/cole-trapnell-lab/monocle-release/files/10134172/monocle_2.26.0.tar.gz

基于上述，总结安装经验如下

# step1：按照正常方式安装monocle包(2.26.0),以安装相关依赖包
BiocManager::install("monocle")

# step2：单独卸载monocle包
remove.packages("monocle")

# step3: 手动安装上述修改好的monocle包
install.packages("monocle_2.26.0.tar.gz", repos = NULL)
library(monocle)

conda install conda-forge::r-rcppeigen #done
conda install conda-forge::r-fastica #done
conda install conda-forge::r-rtsne #done
conda install conda-forge::r-slam #done
conda install conda-forge::r-ddrtree #done
conda install conda-forge::r-igraph #going chidm 2
conda install conda-forge::r-densityclust #done
conda install conda-forge::r-qlcmatrix #done tmp 3
conda install bioconda::bioconductor-biocviews #going monocle 1