根据所用文库的制备方法,RNA序列((also referred to as reads or tags)将从转录本(10X Genomics, CEL-seq2, Drop-seq, inDrops)或全长转录本(Smart-seq)的3'端(或5'端)中衍生。 Image credit: Papalexi E and Satija R. Single-cell RNA sequencing to explore immune cell heterogeneity, Nature Reviews...
Analysis of single cell RNA-seq datahemberg-lab.github.io/scRNA.seq.course/ 主讲人Vladimir Kiselev主编SC3和scmap两个single-cell RNA-seq数据分析包,其导师Martin Hemberg是剑桥教授。 有意思的是,现在R里处理single-cell RNA sequencing的packages主要分成两派:SingleCellExperiment派和Seurat派。 SingleCellEx...
1.Falco,在cloud上 2.SCONE:single-cell RNA-seq data 质检和标准化的包 3.Seurat,R包 4.ASAP:(Automated Single-cell Analysis Pipeline,一个网络平台 而关于单细胞RNA-seq的局限主要来自: 1.扩增,每个cell分得的reads 2.细胞基因的特异性表达,以区分不同类的细胞 分析的流程图:...
[论文笔记] :MetaCell: analysis of single-cell RNA-seq data using K-nn graph partitions 论文是一种非参数方法将细胞分为不相交的细胞团,同时避免数据平滑 整个算法流程为: 1. 原始矩阵进行特征选择 2. 构建平衡KNN图:如果我们用传统的相似性网络作为基因的co-expr网络的时候,每个节点根据阈值的选择,不同节...
SinglecellRNA-seqdataanalysiswithR简介和实验设计质量控制数据预处理归一化和批处理效果校正数据集成ccamnn数据集对齐降维pcatsne和umap聚类差异基因表达分析细胞类型识别轨迹伪时间空间转录组学 SinglecellRNA-seqdataanalysiswithR CSC – IT科学中心是芬兰国家和高等教育机构拥有的芬兰信息技术专业中心。为高等教育机构,...
图片来源:Zhang M J, Hou K, Dey K K, et al. Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data[R]. Nature Publishing Group, 2022. 2、通过scDRS分析可以得到什么 第一、鉴定表型相关的细胞类型,比如下图: ...
theory based on the popular splicing analysis method rna velocity will also be demonstrated. finally, we will discuss our recent efforts to interpolate non-stationary time-series scrna-seq data using wasserstein-fisher-rao-metric unbal...
与bulk RNA-seq不同,scRNA-seq提供了单个细胞中每个基因表达的定量测量。然而,要分析scRNA-seq数据,需要新的方法,并且为bulk RNA-seq实验开发的方法的一些基本假设不再有效。在本课程中,我们将介绍scRNA-seq处理的所有步骤,从来自测序仪的原始读数开始。本课程包括使用最先进的方法的常用的分析策略,我们还讨论了可...
Single-cell RNA sequencing (scRNA-seq) promises to provide higher resolution of cellular differences than bulk RNA sequencing. Clustering transcriptomes profiled by scRNA-seq has been routinely conducted to reveal cell heterogeneity and diversity. However, clustering analysis of scRNA-seq data remains a...
单细胞RNA测序Single Cell RNA Sequencing vs. Bulk RNA Sequencing 3876 1 7:35:42 App 生肉|Single cell RNA-seq data analysis with R (2019) 单细胞RNA测序数据分析教程 2万 31 31:32 App 30分钟拿下RNA-seq原理、操作方法、分析方法和应用场景 443 -- 3:15:30 App 单细胞RNA-seq ChiPster 6599...