本教程演示了如何使用mixscape 分析 single-cell pooled CRSIPR screens。我们介绍新的seurat功能: 生信技能树jimmy 2022/01/10 6090 翻车实录之Nature Medicine新冠单细胞文献|附全代码 html图像处理githubhttpsgit NGS系列文章包括NGS基础、转录组分析 (Nature重磅综述|关于
本次演示使用的数据来自2017年发表于Cell的头颈鳞癌单细胞文章:Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer。本次演示提供处理好的测试数据,以及所有代码,一共6个脚本(我目前写得最详细的教程,也是全网少有的)。 数据的预处理就不演示了,... 查看原文...
论文题目 Resolving single-cell heterogeneity from hundreds of thousands of cells through sequential hybrid clustering and NMF 论文摘要 单细胞RNA测序(scRNA-Seq)技术的快速发展,开发了多种计算模型,以检测转录一致性的算法。虽然检测异构性的算法的复杂性有所增加,但大多数算法需要用户调试,严重依赖于降维技术,并...
Python is gaining popularity in single-cell data analysis. Two examples are scanpy (for scRNA-seq) and episcanpy (for single cell epigenomic data, e.g., scATAC-seq). To ensurescopenis usable in this context, we provide ajupyter notebookto show you how to combine scOpen and (epi)scanpy ...
Fixed all print statements python 3.x+ error, fixed print statement b… Feb 6, 2020 preprocessing.sh Update preprocessing.sh Aug 11, 2018 README coupledNMF Introduction Here is the source code for Integrative analysis of single cell genomics data by coupled nonnegative matrix factorizations. When...
英文标题: Dissecting tumor transcriptional heterogeneity from single-cell RNA-seq data by generalized binary covariance decomposition 中文标题:通过广义二元协方差分解从单细胞RNA测序数据中剖析肿瘤转录异质性 文章类型:Technical Report Abstract Para_01
Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R, and GenePattern Notebook implementations of CoGAPS. bioRxiv (2022) doi:10.1101/2022.07.09.499398. Fertig, Elana J., Jie Ding, Alexander V. Favorov, Giovanni Parmigiani, and ...
JSNMFuP: A unsupervised method for the integrative analysis of single-cell multi-omics data based on non-negative matrix factorization. This is the Python implementation of the JSNMFuP algorithm. Note that this implementation supports GPU acceleration. 1. Installation You can use the following comma...
Since the Cell Ranger (https://github.com/10XGenomics/cellranger) is one of the most popular single cell preprocessing software, our algorithm can further process the output of Cell Ranger. For example, one of the Cell Ranger output is the matrix.mtx as ...