# #——风格,回声= FALSE,结果= '飞机 '-------------------------------------------------------- BiocStyle:减价()选项(宽度= 100,max.print = 1000) knitr:: opts_chunk设置(eval = as.logical (Sys美元。采用“KNITR_EVAL”,“真正的”)),缓存= as.logical (Sys。采用“KNITR_CACHE”、“真的 "))) ## ---- 设置中,回声= FALSE,消息= FALSE,警告= FALSE -------------------------------------------- suppressPackageStartupMessages({库(systemPipeR)图书馆(systemPipeRdata)图书馆(BiocGenerics ) }) ## ---- 安装,eval = FALSE -------------------------------------------------------------------------- # 源(“//www.andersvercelli.com/biocLite.R”)# biocLite来源。#安装脚本biocLite("tgirke/systemPipeRdata"， build_vignettes=TRUE, dependencies=TRUE) # installing from githubeval = TRUE -------------------------------------------------------------- 库(systemPipeRdata) #加载包# #——documentation_systemPipeRdata eval = FALSE ---------------------------------------------------- # 图书馆(帮助=“systemPipeRdata”)#包列表信息#装饰图案(systemPipeRdata) # # #打开一幕——generate_workenvir,eval = FALSE --------------------------------------------------------------- # genWorkenvir(工作流=“varseq mydirname = NULL) # setwd(“varseq ") ## ---- workflow_template_structure eval = FALSE ------------------------------------------------------ # workflow_name / # * .Rnw / *。Rmd脚本和目标文件# param/ #参数文件命令行软件#数据/ #输入例如FASTQ, reference，注释#结果/ #分析结果文件## ----load_systemPipeR，eval = TRUE ------------------------------------------------------------------ 库(systemPipeR) #加载systemPipeR需要安装通过biocLite()从Bioconductor # #——documentation_systemPipeR eval = FALSE -------------------------------------------------------- # 装饰图案(“systemPipeR”,包= " systemPipeR ") ## ---- return_samplepaths eval = TRUE ---------------------------------------------------------------- pathList () ## ---- sessionInfo ---------------------------------------------------------------------------------- sessionInfo ()