# # # R代码从装饰图案的usingPathprintGEOData来源。Rnw“# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块1号:usingPathprintGEOData。Rnw: 61 - 119 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #使用pathprint库库(pathprint)库(SummarizedExperiment)库(pathprintGEOData) #加载数据数据(SummarizedExperimentGEO) ds = c (“chipframe”、“genesets”、“pathprint.Hs.gs”、“平台。阈值”、“pluripotents.frame”)的数据(列表= ds) #看到可用平台的名字(chipframe) #提取GEO.fingerprint。矩阵和GEO.metadata。矩阵GEO.fingerprint。矩阵=化验(geo_sum_data)指纹GEO.metadata美元。矩阵= colData (geo_sum_data) #为多能创造共识指纹样本多能。共识< -consensusFingerprint (GEO.fingerprint.matrix [, pluripotents.frame GSM美元],阈值= 0.9)#多能共识地理计算距离。pluripotentDistance < -consensusDistance(多能。共识,GEO.fingerprint.matrix) #绘制直方图par (mfcol = c (2, 1), 3 = c (0、4、4、2) geo.pluripotentDistance。<嘘嘘(geo。pluripotentDistance,“距离”,类= 50,xlim = c(0, 1),主要=“距离多能共识”)标准(mar = c(7、4、4、2)嘘(geo。pluripotentDistance pluripotents.frame GSM美元,“距离”,减免= geo.pluripotentDistance。嘘了美元,xlim = c(0, 1),主要= " xlab =“上图:地理,下图:多功能样品”)#注释100强匹配与元数据原始种子geo.pluripotentDistance.noSeed <地理。pluripotentDistance [! (rownames (geo.pluripotentDistance) % % pluripotents.frame GSM美元),]top.noSeed.meta < -GEO.metadata。矩阵(匹配(头(rownames (geo.pluripotentDistance.noSeed), 100), rownames (GEO.metadata.matrix)),)打印(top.noSeed。元(c (1:4)))