周末生物信息学培训班准备工作

第一个准备工作是安装必备软件,参考视频链接:https://share.weiyun.com/54W3N7A
第二个准备工作,看这2个小时的linux基础视频,我的范例见:http://www.bio-info-trainee.com/3573.html
第三个准备工作是看完这个10分钟测序原理视频:链接:https://share.weiyun.com/5dLV9A7 密码:wsstn9
最后一个作业,尽可能的听完我在B站的R语言课程哈,链接是:https://www.bilibili.com/video/av25643438/

R包安装

rm(list = ls()) 
options()$repos 
options()$BioC_mirror
options(BioC_mirror="https://mirrors.ustc.edu.cn/bioc/")
options("repos" = c(CRAN="https://mirrors.tuna.tsinghua.edu.cn/CRAN/"))
options()$repos 
options()$BioC_mirror

# https://bioconductor.org/packages/release/bioc/html/GEOquery.html
if (!requireNamespace("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("KEGG.db",ask = F,update = F)
BiocManager::install(c("GSEABase","GSVA","clusterProfiler" ),ask = F,update = F)
BiocManager::install(c("GEOquery","limma","impute" ),ask = F,update = F)
BiocManager::install(c("genefu","org.Hs.eg.db","hgu133plus2.db" ),ask = F,update = F)

# source("https://bioconductor.org/biocLite.R") 
# library('BiocInstaller') 
# options(BioC_mirror="https://mirrors.ustc.edu.cn/bioc/") 
# BiocInstaller::biocLite("GEOquery")
# BiocInstaller::biocLite(c("limma"))
# BiocInstaller::biocLite(c("impute"))

options()$repos
install.packages('WGCNA')
install.packages(c("FactoMineR", "factoextra"))
install.packages(c("ggplot2", "pheatmap","ggpubr"))
library("FactoMineR")
library("factoextra")

library(GSEABase)
library(GSVA)
library(clusterProfiler)
library(genefu)
library(ggplot2)
library(ggpubr)
library(hgu133plus2.db)
library(limma)
library(org.Hs.eg.db)
library(pheatmap)

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