MIT license Consensus NMF (cNMF) cNMF is a pipeline for inferring gene expression programs from scRNA-Seq. It takes a count matrix (N cells X G genes) as input and produces a (K x G) matrix of gene expression programs (GEPs) and a (N x K) matrix specifying the usage of each progr...
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Also I set things up so that the github actions tests run automatically on this pull request. Make sure that these tests are all passing. If tests fail, find and fix the problems. (I would first try these command line commands: make format and make typecheck.) Currently the nmf branch ...
另外,将功能基因集合进行富集分析(如GO和GEVA)可以更好地解读基因功能集合所对应的功能,对后期寻找疾病相关的标志基因提供更多的可能性。 参考:https://github.com/dylkot/cNMF/blob/master/Tutorials/analyze_simulated_example_data.ipynb https://github.com/dylkot/cNMF/tree/master?tab=readme-ov-file...
Constrained Nonnegative Matrix Factorization for microEndoscopic data. 'E' also suggests 'extension'. It is built on top ofCNMFwith supports to 1 photon data. Download OPTION 1: download the package using thisLINK OPTION 2: (recommended) clone the git repositoryhttps://github.com/zhoupc/CNMF_...
github上的图挺形象的,从左到右把细胞信息转化成基因矩阵然后进行分解提取。 步骤流程 R语言部分 1、导入 代码语言:javascript 复制 rm(list=ls())options(stringsAsFactors=F)library(Seurat)library(ggplot2)library(qs)library(BiocParallel)register(MulticoreParam(workers=4,progressbar=TRUE))sc_data<-qread("...
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data - HailinPan/cNMF
Issues19 Pull requests2 Actions Projects Security Insights Additional navigation options master BranchesTags Code README MIT license Consensus NMF (cNMF) cNMF is a pipeline for inferring gene expression programs from scRNA-Seq. It takes a count matrix (N cells X G genes) as input and produces a...