Comprehensive Integration of Single-Cell Data 实在是没想到,这篇seurat的V3里面的整合方法居然发在了Cell主刊。 果然:大佬+前沿领域=无限可能 可以看到bioRxiv上是November 02, 2018发布的,然后Cell主刊June 06, 2019正式发表。 方法的创意应该在2017年底就有了,那时候我才刚来做single cell。 Single-cell transcr...
Most current single-cell data integration methods (e.g., Seurat16,17,18, MNN19, Harmony20, Conos21, Scanorama22, BBKNN23, etc.) are based on the searching across batches for cell-correspondence, for instance similar individual cells or cell anchors/clusters. These methods suffer from three ...
Despite the emergence of experimental methods for simultaneous measurement of multiple omics modalities in single cells, most single-cell datasets include only one modality. A major obstacle in integrating omics data from multiple modalities is that diff
Download all Table S1. Cell-Type Holdout Information for Integration Evaluation Cases, Related to Figure 2 Data S1. Protein and Gene Expression Patterns in Human Bone Marrow Cells, Related to Figure 4 Data S2. Spatial Gene Expression Patterns in the Mouse Brain, Related to Figure 5Volume...
单细胞数据整合⽅法ComprehensiveIntegrationofSingle-Cel。。。依赖的算法 CCA MNN 实在是没想到，这篇seurat的V3⾥⾯的整合⽅法居然发在了Cell主刊。果然：⼤佬+前沿领域=⽆限可能 可以看到bioRxiv上是November 02, 2018发布的，然后Cell主刊June 06, 2019正式发表。⽅法的创意应该在2017年底就有了，...
To overcome this problem, we have proposed Single Cell Integration by Disentangled Representation Learning (SCIDRL), a domain adaption-based method, to learn low-dimensional representations invariant to batch effect. This method can efficiently remove batch effect while retaining cell type purity. We ...
Cell ||Comprehensive integration of single cell data这篇文章其实在2018年底就可以读了,今天要和大家分享的是一套PPT。来自Seurat的开发者satijalab实验室,PPT中并没有复杂的数据公式,有的是一张又一张UMAP以及TSNE图,花,实在是花。 Can we perform integrated analysis across datasets...
Harmony, an algorithm that projects cells into a shared embedding in which cells group by cell type rather than dataset-specific conditions. (将不同数据集的细胞投影到一个共享embedding,在这个embedding里细胞按细胞类型分组,而不是按数据集特定的条件分组。) ...
Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space - jsxlei/SCALEX
Integration of single-cell RNA sequencing data between different samples has been a major challenge for analyzing cell populations. However, strategies to integrate differential expression analysis of single-cell data remain underinvestigated. Here, we benchmark 46 workflows for differential expression analy...