# # #从装饰图案R代码源的数目。Rnw“# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块1号:数目。Rnw: 127 - 130 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #库(“GeneGeneInteR”) (“gene.pair”) # # # #数据头(gene.pair $ Y) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块2号:数目。Rnw: 142 - 143 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #基因。对美元G1 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块3号:数目。Rnw: 158 - 159 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #基因。对美元G2 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块数量4:数目。Rnw: 229 - 231 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # PCA.test (Y =基因。对美元Y, G1 =基因。美元对美元G1, G2 = gene.pair G2,阈值= 0.7,= # #方法“GenFreq”) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块5号:数目。Rnw: 252 - 254 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # PCA.test (Y =基因。对美元Y, G1 =基因。美元对美元G1, G2 = gene.pair G2,阈值= 0.7,= # #方法“性病”)# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块6号:数目。Rnw: 297 - 298 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # CCA.test (Y =基因。对美元Y, G1 =基因。美元对美元G1, G2 = gene.pair G2, n.boot = 500) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块7号:数目。Rnw: 341 - 344 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # set.seed (1234) # # KCCA.test (Y =基因。对美元Y, G1 = gene.pair $ G1, G2 =基因。内核对G2美元,# # =“rbfdot”,σ= 0.05,n.boot = 500) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块8:数量的数目。Rnw: 368 - 371 (eval = FALSE) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # set.seed (1234) # # KCCA.test (Y =基因。对美元Y, G1 = gene.pair $ G1, G2 =基因。pair$G2, ## kernel="polydot",degree = 1, scale = 1, offset = 1) ################################################### ### code chunk number 9: GenePair.Rnw:410-412 (eval = FALSE) ################################################### ## set.seed(1234) ## PLSPM.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,n.perm=1000) ################################################### ### code chunk number 10: GenePair.Rnw:489-491 (eval = FALSE) ################################################### ## set.seed(1234) ## CLD.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,n.perm=2000) ################################################### ### code chunk number 11: GenePair.Rnw:532-534 (eval = FALSE) ################################################### ## set.seed(1234) ## GBIGM.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,n.perm=2000) ################################################### ### code chunk number 12: GenePair.Rnw:605-607 (eval = FALSE) ################################################### ## set.seed(1234) ## minP.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2) ################################################### ### code chunk number 13: GenePair.Rnw:644-646 (eval = FALSE) ################################################### ## set.seed(1234) ## gates.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,me.est="ChevNy") ################################################### ### code chunk number 14: GenePair.Rnw:668-670 (eval = FALSE) ################################################### ## set.seed(1234) ## gates.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,alpha=0.05,me.est="Keff") ################################################### ### code chunk number 15: GenePair.Rnw:692-694 (eval = FALSE) ################################################### ## set.seed(1234) ## gates.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,me.est="LiJi") ################################################### ### code chunk number 16: GenePair.Rnw:716-718 (eval = FALSE) ################################################### ## set.seed(1234) ## gates.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,me.est="Galwey") ################################################### ### code chunk number 17: GenePair.Rnw:761-763 (eval = FALSE) ################################################### ## set.seed(1234) ## tTS.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,tau=0.5,n.sim=10000) ################################################### ### code chunk number 18: GenePair.Rnw:785-787 (eval = FALSE) ################################################### ## set.seed(1234) ## tProd.test(Y=gene.pair$Y, G1=gene.pair$G1,G2=gene.pair$G2,tau=0.05,n.sim=1000)