# # # R代码从装饰图案的prettyOutput来源。Rnw“# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块1号:prettyOutput。Rnw: 78 - 79 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #选项(宽度= 70)# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块2号:prettyOutput。Rnw: 82 - 85 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #库(“注释”)的数据(sample.ExpressionSet) igenes <——featureNames (sample.ExpressionSet)(246:260) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块3号:prettyOutput。Rnw: 89 - 98 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # ug < - c(“海关。169284 / / - - - - - -”、“Hs.268515 / /完整”、“Hs.103419 / /完整”、“Hs.380429 / / - - - - - -”,“- - - - - - / / - - - - - -”、“Hs.169331 / /完整”、“Hs.381231 / /完整”、“Hs.283781 / /完整”、“推荐- - - - - - / / - - - - - -”,“- - - - - - / / - - - - - -”、“Hs.3195 / /完整”、“推荐- - - - - - / / - - - - - -”、“Hs.176660 / /完整”、“Hs.272484 / /完整”、“Hs.372679 / /完整”)将< - c (“221823”、“4330”、“9637”、“——”“——”,“6331”,“841”,“27335”,“——”“——”,“6375”,“——”,“2543”,“2578”,“2215”) gb < - c (“M57423”、“Z70218”、“L17328”、“S81916”、“U63332”、“M77235”、“X98175”、“AB019392”、“J03071”、“D25272”、“D63789”、“D63789”、“U19142”、“U19147”、“X16863”) sp < - c (“P21108”、“Q10571”、“Q9UHY8”、“Q16444”、“——”、“Q14524 / / / Q8IZC9 / / / Q8WTQ6 / / / Q8WWN5 / / / Q96J69”、“Q14790”、“Q9UBQ5”、“——”“——”,“P47992”、“——”、“Q13065 / / / Q8IYC5”、“Q13070”、“O75015”) # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块数量4:prettyOutput。Rnw: 117 - 119 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # gb我# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块5号:prettyOutput。Rnw: 127 - 130 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # ug ug < -子(“/ /。*”、“美元”,ug) ug # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块6号:prettyOutput。Rnw: 141 - 144 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # sp sp <——strsplit(子(“- - -”、“as.character (sp)),“/ / /”) sp # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块7号:expDat # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # dat < - exprs (sample.ExpressionSet) [igenes, 1:10] FC < - rowMeans (dat (igenes, 1:5))——rowMeans (dat [igenes, 6:10]) pval < esApply(样本。ExpressionSet [igenes 1:10] 1、功能(x) t。测试(x [1:5], [10]) p.value美元)tstat < - esApply(样本。ExpressionSet [igenes 1:10] 1、功能(x) t。测试(x[1:5],[10])统计美元)# # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #代码块8号:prettyOutput。Rnw: 170 - 177 # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #名< - c(“假想蛋白LOC221823”、“脑膜瘤(平衡易位中断)1”、“束状和伸长蛋白质ζ2 (zygin II)”, "Phosphoglycerate kinase {alternatively spliced}", "---","sodium channel, voltage-gated, type V, alpha polypeptide", "caspase 8, apoptosis-related cysteine protease","muscle specific gene","---","---","chemokine (C motif) ligand 1", "---","G antigen 1","G antigen 6","Fc fragment of IgG, low affinity IIIb, receptor for (CD16)") ################################################### ### code chunk number 9: prettyOutput.Rnw:179-182 ################################################### name name <- gsub("---", " ", name) name ################################################### ### code chunk number 10: buildTable ################################################### genelist <- list(igenes, ug, ll, gb, sp) filename <- "Interesting_genes.html" title <- "An Artificial Set of Interesting Genes" othernames <- list(name, round(tstat, 2), round(pval, 3), round(FC, 1), round(dat, 2)) head <- c("Probe ID", "UniGene", "LocusLink", "GenBank", "SwissProt", "Gene Name", "t-statistic", "p-value", "Fold Change", "Sample 1", "Sample 2", "Sample 3", "Sample 4", "Sample 5", "Sample 6", "Sample 7", "Sample 8", "Sample 9", "Sample 10") repository <- list("affy", "ug", "en", "gb", "sp") htmlpage(genelist, filename, title, othernames, head, repository = repository) ################################################### ### code chunk number 11: prettyOutput.Rnw:208-209 ################################################### sessionInfo()