“License:” field: should preferably refer to a standard license (seewikipedia) using one of R’s standard specifications. Be specific about any version that applies (e.g., GPL-2). CoreBioconductorpackages are typically licensed under Artistic-2.0. To specify a non-standard license, include a...
这些相互依赖关系可以作为biocPkgList()输出的一部分。BiocPkgTools提供了一些方便的函数来将包依赖关系转换为R图。 Create adata.frameof dependencies usingbuildPkgDependencyDataFrame. Create anigraphobject from the dependency data frame usingbuildPkgDependencyIgraph Use nativeigraphfunctionality to perform arbitrary...
There is a separate log for checking if your package works without suggested packages: in the StepReg results The noSuggests title leads to:https://www.stats.ox.ac.uk/pub/bdr/noSuggests/StepReg.outWhere you can see that it fails if a user don't have BiocStyle installed. I don't know...
# 参考 https://bioconductor.org/packages/release/bioc/vignettes/scater/inst/doc/vignette-intro.Rsce<-SingleCellExperiment(assays=list(counts=ct),colData=pheno_data)sce # # 后面所有的分析都是基于 sce 这个变量 ,是一个 SingleCellExperiment 对象,被很多单细胞R包采用。 seurat 对象 主要是seurat包采用...
2.2 安装R包 安装源自CRAN的包:install.packages()基础函数 代码语言:javascript 复制 install.packages("BiocManager") 安装源自Bioconductor的包:BiocManager::install();其中BiocManager是管理下载Bioconductor包的包,::表示引用该包的函数,install()就是下载包的函数。
基本上只需要把下面的代码运行一遍,就明白了:http://www.bioconductor.org/packages/release/bioc/vignettes/STRINGdb/inst/doc/STRINGdb.R library(STRINGdb) ## 整个包不是用roxygen2来写帮助文档的,而且自己把所有函数放在了string_db对象里面,用$符合来调用各个函数,也可以查看函数的帮助文档!
packages Hi everyone, I recently developed an R package called 'StepReg' and used the Bioconductor R package 'BiocStyle' in my vignettes, as shown below: output: BiocStyle::html_document: toc_float: true BiocStyle::pdf_document: default ...
④Assays are performed. In the MS example, it often occurs that the MS instrument software allows to copy & paste into its sample table, and creates a report (including MS filenames) that can go into the ISA-Tab assay information.⑤Domain specificRpackages, such asxcmsfor MS, process ...
bioconductor包的大致介绍
包的主页是:https://www.bioconductor.org/packages/release/bioc/html/BioNet.html paper:BioNet: an R-Package for the Functional Analysis of ... - Bioinformatics 它整合了PPI网络分析和寻找功能模块的需求。 脚本:https://www.bioconductor.org/packages/release/bioc/vignettes/BioNet/inst/doc/Tutorial.R...