DB design log (5)

May 9

As yesterday's work has implemented the connection pool, today's work is continuing working on the database connection pool level. I finished part of the administrator's function, that is, initializing and redirect the connection pool. The jsp page contains five text input area, dealing with database driver, path, username, password and initial volume. Through this page, administrator could easily change the path of the DB. Hitherto, I had finished the third level.

Another thing which makes today a fruitful day is that I wrote two javabeans dealing with logging and registering. With the help of the logbean, a class that stores the  logged user's information, I can do a lot of user accessing and revising operations more easily.

With the two beans, I finished the easist part of user-oriented part. And tomorrow is a challenge.

您可以使用R语言中的以下包来生成RNA-seq项目log2(ratios)折线图并对不同基因集群进行聚类: 1. edgeR 2. DESeq2 3. clusterProfiler 以下是一个简单的R代码示例,向您展示如何使用这些包来完成任务: #加载必要的包 library(edgeR) library(DESeq2) library(clusterProfiler) #读取RNA-seq数据 counts <- read.table("path/to/counts.csv", header=TRUE, row.names=1, sep=',') #使用edgeR包来标准化数据 y <- DGEList(counts) y <- calcNormFactors(y) design <- model.matrix(~group) y <- estimateDisp(y, design) fit <- glmQLFit(y, design) qlf <- glmQLFTest(fit, coef=2) log2_ratios <- qlf$table$logFC #绘制折线图 plot(log2_ratios, type="l") #使用DESeq2进行差异表达分析和基因聚类 dds <- DESeqDataSetFromMatrix(countData=countdata,colData=coldata,design=~batch+condition) dds <- DESeq(dds) res <- results(dds, contrast=c("condition", "treated", "control")) qvalue <- res[,"padj"] log2FC <- res[,"log2FoldChange"] heatmap.2(expr, dendrogram="both", scale="row", trace="none", labRow=rownames(expr), Colv=FALSE, hclustfun=hclust, distfun=function(x) as.dist(1-cor(t(x),method="spearman")), ColSideColors=color_bar) #使用clusterProfiler包进行GO富集分析 res_ordered <- res[order(res$pvalue),] res20 <- res_ordered[1:20,] background <- rownames(countdata) ids <- rownames(res20) enrich <- enrichGO(ids=ids,OrgDb="org.Hs.eg.db",ont="BP",pvalueCutoff=0.05,readable=T, gene2Symbol= T,background=background) barplot(enrich,showCategory=15,font.size=7,cex.names=0.7)
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