Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data - dylkot/cNMF
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data - cNMF/Stepwise_Guide.md at main · dylkot/cNMF
#!/usr/bin/env python3 import os import sys import urllib.request import tarfile import subprocess def download_file(url, dest_path): """ Download a file from `url` to `dest_path`. """ print(f"Downloading {url} -> {dest_path}") urllib.request.urlretrieve(url, dest_path) print("...
5Branches0Tags Code This branch is117 commits behinddylkot/cNMF:main. README MIT license cNMF is an analysis pipeline for inferring gene expression programs from single-cell RNA-Seq (scRNA-Seq) data. It takes a count matrix (N cells X G genes) as input and produces a (K x G) matrix...
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data - cNMF/Tutorials/analyze_simulated_example_data.ipynb at main · dylkot/cNMF
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 bin caiman demos general notebooks images demo_OnACID_mesoscope.ipynb demo_Ring_CNN.ipynb demo_VST.ipynb demo_caiman_cnmf_3D.ipynb demo_dendritic.ipynb demo_motion_correction.ipynb demo_multisession_registration.ipynb demo_online_3D.ipynb demo_online_cnmfE.ipynb demo_pipeline.ipynb demo_pip...
Download OPTION 1: download the package using thisLINK OPTION 2: (recommended) clone the git repositoryhttps://github.com/zhoupc/CNMF_E.git. In this way, you are able to get the latest updates of the package within 1-line command or 1-button click. ...
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...
Code Issues14 Pull requests Actions Projects Security Insights Additional navigation options main 7Branches0Tags Code Folders and files Name Last commit message Last commit date Latest commit dylkot Merge branch 'development' into 'master' Mar 2, 2025 ...