# #——包括= FALSE,回声= FALSE ----------------------------------------------- # 日期:“‘r doc_date()的“#”“r pkg_ver (BiocStyle)”“## #——回声= FALSE -------------------------------------------------------------- 库(不整合 ) ## ----------------------------------------------------------------------------- # 数据加载数据(TCGA_GBM_miRNA_microarray)数据(TCGA_GBM_transcript_microarray ) ## ---- 回声= FALSE -------------------------------------------------------------- # 修改列名# rownames (TCGA_GBM_miRNA_microarray) < - # substr (rownames (TCGA_GBM_miRNA_microarray), 9日# nchar (rownames (TCGA_GBM_miRNA_microarray ))) ## ----------------------------------------------------------------------------- 数据(TCGA_Breast_miRNASeq) mat.filtered < - splitMADOutlier (TCGA_Breast_miRNASeq filter0 = TRUE,阈值= 4 ) ## ----------------------------------------------------------------------------- 组< - c(代表(10),代表(20))#在组学wthn_vectors < createVectors (x = TCGA_GBM_transcript_microarray,* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *组=组 ) ## ----------------------------------------------------------------------------- # 在组学(wthn_vectors v1美元)负责人(wthn_vectors美元v2 ) ## ----------------------------------------------------------------------------- # 组学(btwn_vectors v1美元)负责人(btwn_vectors美元v2 ) ## ----------------------------------------------------------------------------- # 在组学wthn_result < discordantRun (v1 = wthn_vectors $ v1、v2 = wthn_vectors v2,美元x = TCGA_GBM_transcript_microarray) #之间的组学btwn_result < discordantRun (v1 = btwn_vectors $ v1、v2 = btwn_vectors $ v2, x = TCGA_GBM_miRNA_microarray, y = TCGA_GBM_transcript_microarray ) ## ----------------------------------------------------------------------------- # 在组学wthn_result discordPPMatrix美元[1:5,1:4]#之间的组学btwn_result $ discordPPMatrix [1:5,1:4 ] ## ----------------------------------------------------------------------------- # 在组学头(wthn_result discordPPVector美元)#组学的头(btwn_result discordPPVector美元之间 ) ## ----------------------------------------------------------------------------- # 在组学wthn_result classMatrix美元[1:5,1:4]#之间的组学btwn_result $ classMatrix [1:5, 1:4 ] ## ----------------------------------------------------------------------------- # 在组学(wthn_result classVector美元)#组学的头(btwn_result classVector美元之间 ) ## ----------------------------------------------------------------------------- # 在组学圆(头(wthn_result probMatrix美元),2)#组学之间轮(头(btwn_result probMatrix美元),2 ) ## ----------------------------------------------------------------------------- # 在组学wthn_result loglik #美元之间的组学btwn_result loglik # #美元——错误= TRUE ------------------------------------------------------------ # 组学之间btwn_result < discordantRun (v1 = btwn_vectors $ v1、v2 = btwn_vectors $ v2, x = TCGA_GBM_miRNA_microarray, y = TCGA_GBM_transcript_microarray,组件= 3,二次抽样= TRUE ) ## ----------------------------------------------------------------------------- # 数据加载数据(TCGA_Breast_miRNASeq_voom)数据(TCGA_Breast_RNASeq_voom) #准备组织组< - c(代表(15),代表(42))#创建相关向量sub_vectors < - createVectors (x = TCGA_Breast_miRNASeq_voom y = TCGA_Breast_RNASeq_voom组=组)#运行分析与二次抽样set.seed (126) sub_result < - discordantRun (sub_vectors v1美元,美元sub_vectors v2, x = TCGA_Breast_miRNASeq_voom,y = TCGA_Breast_RNASeq_voom,组件= 3、二次抽样= TRUE) #结果轮(头(sub_result probMatrix美元),2 ) ## ---- 错误= TRUE ------------------------------------------------------------ # 在组学wthn_result < discordantRun (v1 = wthn_vectors $ v1、v2 = wthn_vectors $ v2, x = TCGA_GBM_transcript_microarray,组件= 5 ) ## ----------------------------------------------------------------------------- # 组学之间btwn_result < - discordantRun (v1 = btwn_vectors v1,美元 v2 = btwn_vectors$v2, x = TCGA_GBM_miRNA_microarray, y = TCGA_GBM_transcript_microarray, components = 5) # Between -omics round(head(btwn_result$probMatrix), 2) ## ----------------------------------------------------------------------------- sessionInfo()