Data Wrangling scRNAseq Identifying Cell Populations Feature Selection and Cluster Analysis Batch Effects Correcting Batch Effects Functional Analysis Pseudotime Cell Trajectories Functional Pseudotime Analysis Single Cell Multiomic Technologies CITE-seq and scATAC-seq 链接 那么,话不多说,上链接:/2019_scWorksh...
题目:bridging data and dynamics in single cells through machine learning 时间: 10月10日星期二 11:00 地点:校本部教二楼 309 reports 摘要 part/2 the rapid development of single-cell sequencing technologies provides unprecedented resolut...
[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...
那么对应于每个cell,它被检测到的唯一基因的总数是一定的,结合两幅图即可计算ERCCs\MTs,若该值高,则说明捕获到的这个cell里面的RNA数量太少,可能要被去除掉(线粒体基因表达少,内参基因表达高,说明大部分捕捉到的是内参基因的RNA,而不是该cell内的RNA) 图中NA19098.r2这个batch的细胞普遍RNA量都不高 那么就可...
Identifying cell-containing droplets/microwells 包裹过程 这里在介绍先单细胞中barcode的概念:正如“包裹过程”那幅图所示,我们控制条件,每次输入同一种类型的cell进入管道,此时输入的珠子上带有相同的barcode;那我们改变条件,让另一种细胞既然管道,此时输入的珠子带有另一种barcode。
SCell: integrated analysis of single-cell RNA-seq data. Bioinformatics (2016). doi:10.1093/bioinformatics/btw201A. Diaz et al., SCell: Integrated analysis of single-cell RNA-seq data. Bioinformatics. 32 (2016), doi:10.1093/bioinformatics/btw201....
业界良心啊,开源的单细胞课程。 随便看了几章,课程写得非常用心,非常适合新手。 课程地址:Analysis of single cell RNA-seq data 源码地址:hemberg-lab/scRNA.seq.course
The application of single-cell RNA sequencing (scRNA-seq) in biomedical research has advanced our understanding of the pathogenesis of disease and provided valuable insights into new diagnostic and therapeutic strategies. With the expansion of capacity f
The SIMLR software identifies similarities between cells across a range of single-cell RNA-seq data, enabling effective dimension reduction, clustering and visualization. We present single-cell interpretation via multikernel learning (SIMLR), an analytic
首先我们先介绍下UMI这个概念,UMI其实就是区分每个测序分子片段的barcode,这么做可以区分每个分子是哪一个cell表达的 我们还是采用deng这个数据做例子 首先我们构造Seurat的单细胞对象: library(SingleCellExperiment)library(Seurat)library(mclust)library(dplyr)seuset<-CreateSeuratObject(raw.data=counts(deng),min.cell...