from complex experimental data, often subject to batch effects and other noise. In tandem with the development of sequencing technology (e.g., RNA-seq, scRNA-seq), many variants of PCA have been developed in attempts to remedy deficiencies in interpretability and stability that plague vanilla ...
Here, we introduce scPLAN, a hierarchical computational framework designed for scRNA-seq data analysis. scPLAN excels in annotating unlabeled scRNA-seq data using a reference dataset structured along a hierarchical cell-type tree. It identifies potential novel cell types in a systematic, layer-by-...
scrna-seq shiny-apps single-cell shinyapps single-cell-genomics single-cell-rna-seq single-cell-analysis single-cell-atac-seq seurat single-cell-omics scrna-seq-analysis single-cell-sequencing shiny-app scanpy scatac-seq anndata scrna-pipeline seurat-objects single-cell-pipeline Resources Readme ...
Our paper introducing SCPA and demonstrating its use on a T cell scRNA-seq dataset is published in Cell Reportshere Installation You can install SCPA by running: #install.packages("devtools")devtools::install_version("crossmatch",version="1.3.1",repos="http://cran.us.r-project.org")devtools...
scPS: power and sample size calculation in differential expression analysis of scRNAseq data Chih-Yuan Hsu Sept/15/2024 Chih-Yuan Hsu, Qi Liu, and Yu Shyr (2024). A distribution-free and analytic method for power and sample size calculation in single-cell differential expression. Bioinformatics...
导入的数据如图,是我们进行Binary分析所需的三个数据,分别是:Binary数据(样本的肿瘤与正常的二元数据),Bulk数据(表型数据),sc_count数据(scRNA的测序数据)。 接着是我们分析的结果,通过ScPP利用二元变量分析得到了细胞中的背景基因,以及带有标记基因的高表达和低表达群,图中的红色表示高表达群,说明这部分的细胞可能...
SCS【32】基于scRNA-seq数据中推断单细胞的eQTLs (eQTLsingle) SCS【33】单细胞转录之全自动超快速的细胞类型鉴定 (ScType) SCS【34】单细胞/T细胞/抗体免疫库数据分析(immunarch) SCS【35】单细胞转录组之去除双细胞 (DoubletFinder) SCS【36】单细胞转录组之k-近邻图差异丰度测试(miloR) ...