之前曾老师给我看了一位在pipebio工作的生信工程师Roman Hillje的scRNA-seq的workflow,今天整理一下分享给大家。 Roman Hillje的github主页:https://github.com/romanhaa workflow:https://romanhaa.github.io/projects/scrnaseq_workflow/ 示例数据来源:GSE120221 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cg...
Medical and Population Genetics Primer February 6, 2025 Broad Institute of MIT and Harvard Marc Elosua Bayes Boston Children's Hospital Introduction to scRNAseq workflow For more resources and information about this talk: The Primer on Medical and Population Genetics is a series of informal weekly ...
Droplet-based scRNA-seq的比对和定量 1️⃣ 首先我们要搞清楚scRNA-seq都有哪些产物。 cDNA片段 (识别转录本); Cell barcode (CB,识别细胞); Unique Molecular Identifier (UMI,减小PCR扩增带来的bias)。 2️⃣ 典型的scRNA-seq的workflow包括以下几个步骤:👇 将cDNAmapping到reference上; 计算基因reads;...
Figure | Schematic of a typical single‐cell RNA ‐seq analysis workflow; From Luecken et al.,[5] 小编总结 目前来说3’-end sequencing的方法更流行,但是相关的数据出分析上则更加复杂一点。 在我们之后相关的文章中,会着重于来自Droplet-based 方法的数据,给大家带来具体的例子进行分析,并对核心的分析步...
By automating and optimizing the entire scRNAseq analysis workflow, it facilitates the processing of numerous samples while seamlessly scaling to meet user needs. The stepwise execution of ScRNAbox provides researchers with fine-grained control over parameters and manual cell annotations, ensuring ...
In-depth-NGS-Data-Analysis-Course scrnaseq-course.cog.sanger.ac.uk kallistobus 生信技能树版 改编自 SCENIC Workflow 改编自 Computational approaches for interpreting scRNA-seq data
Figure 1 | Schematic of a typical single‐cell RNA ‐seq analysis workflow; From Luecken et al.,[5] 小编总结 目前来说3’-end sequencing的方法更流行,但是相关的数据出分析上则更加复杂一点。 在我们之后相关的文章中,会着重于来自Droplet-based 方法的数据,给大家带来具体的例子进行分析,并对核心的分析...
单细胞测序数据集的整合(例如跨实验批次、供体或条件)通常是 scRNA-seq 工作流程中的重要步骤。整合分析可以帮助匹配跨数据集的共享细胞类型和状态,这可以提高统计能力,最重要的是,促进跨数据集的准确比较分析。 在Seurat 的早期版本中,引入了整合分析方法,包括“anchor-based”的整合工作流程。许多实验室还发布了用于...
With the growing amount of data being generated, the standardization and automation of data analysis are critical to generating hypotheses and discovering biological insights.#Here, we present scRNASequest, a semi-automated single-cell RNA-seq (scRNA-seq) data analysis workflow which allows (1) ...
bioconductor教程:Using scran to analyze single-cell RNA-seq data https:///packages/devel/bioc/vignettes/scran/inst/doc/scran.html 一步步手把手流程:https:///workflow/simple-single-cell/ 基本上经过四五个小时的模式,你就会总结到一些常见的挑选 highly variable genes (HVG) 的算法和R包,我简单罗列5个...