Luecken MD, Theis FJ. Current best practices in single-cell RNA-seq analysis: a tutorial. Mol. Syst. Biol. 2019, 15: e8746. 前文回顾 单细胞RNA-seq数据分析最佳实践(上) Pre-processing and visualization Normalization 计数矩阵中的每个计数代表细胞 mRNA 分子的成功捕获、逆转录和测序(框 1)。由...
RNASeq:A(soontobeoutdated)Tutorial ABriefHistoryofSequencingandGeneExpression TagBasedSequencingApproachesFrederick“Fred”Sanger SerialAnalysisofGeneExpression(SAGE)CapAnalysisofGeneExpression(CAGE)Massivelyparallelsignaturesequence(MPSS)HybridizationBasedGeneExpressionQuantification LimitationsofSangerSequencingLowthroughput...
注意 data peeking 的发生(Data peekinggoes something like this: you run some subjects, then do an analysis. If it comes out significant, you stop. If not, you run some more subjects and try again) 3. Normalization 归一化和标准化的区别 https://cloud.tencent.com/developer/article/1486102 常...
index_col=0,sep='\t',header=1) #replace the columns `.bam` to `` data.columns=[i.split...
使用相同的生物样本重复实验步骤,以准确测量技术差异并在分析过程中将其去除。 生物学重复 使用相同条件下的不同生物样本来衡量样本间的差异。 在微阵列时代,技术重复被认为是必要的;然而,当前的RNA-seq技术,技术差异远低于生物差异,因此不需要技术重复。相反,生物重复对于差异表达分析是绝对必要的。
To understand the basics of RNA-Seq data, how to use RNA-Seq for different objectives and to familiarize yourself with some standard software packages for such analysis. Getting started The main goal of this activity is to go through a standard method to obtain gene expression values and perfor...
Luecken MD, Theis FJ. Current best practices in single-cell RNA-seq analysis: a tutorial. Mol. Syst. Biol. 2019, 15: e8746. Downstream analysis 预处理后,我们称之为下游分析的方法被用于提取生物学见解并描述潜在的生物学系统。这些描述是通过拟合数据的可解释模型获得的。这些模型的例子是 ...
final_counts folder. This tutorial will useDESeq2to normalize and perform the statistical analysis ...
This tutorial shows an example of RNA-seq data analysis with DESeq2, followed by KEGG pathway analysis usingGAGE. Using data fromGSE37704, with processed data available on Figshare DOI:10.6084/m9.figshare.1601975. This dataset has six samples from GSE37704, where expres...
2 共表达流程 Tutorial Preparing RNA-seq data for network construction Building a co-expression network Detecting co-expression modules Annotating a co-expression network Visualizing network正文开始 1.1 Types of biological networks 生物网络可以包含不同的数据类型,用点(node)和边(edge)区分。常见的网络类型...