Other packages > Find by keyword >

scPOEM  

Single-Cell Meta-Path Based Omic Embedding
View on CRAN: Click here


Download and install scPOEM package within the R console
Install from CRAN:
install.packages("scPOEM")

Install from Github:
library("remotes")
install_github("cran/scPOEM")

Install by package version:
library("remotes")
install_version("scPOEM", "0.1.3")



Attach the package and use:
library("scPOEM")
Maintained by
Yuntong Hou
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-08-28
Latest Update: 2025-08-28
Description:
Provide a workflow to jointly embed chromatin accessibility peaks and expressed genes into a shared low-dimensional space using paired single-cell ATAC-seq (scATAC-seq) and single-cell RNA-seq (scRNA-seq) data. It integrates regulatory relationships among peak-peak interactions (via 'Cicero'), peak-gene interactions (via Lasso, random forest, and XGBoost), and gene-gene interactions (via principal component regression). With the input of paired scATAC-seq and scRNA-seq data matrices, it assigns a low-dimensional feature vector to each gene and peak. Additionally, it supports the reconstruction of gene-gene network with low-dimensional projections (via epsilon-NN) and then the comparison of the networks of two conditions through manifold alignment implemented in 'scTenifoldNet'.
How to cite:
Yuntong Hou (2025). scPOEM: Single-Cell Meta-Path Based Omic Embedding. R package version 0.1.3, https://cran.r-project.org/web/packages/scPOEM. Accessed 05 Jun. 2026.
Previous versions and publish date:
0.1.2 (2025-08-28 11:00)
Other packages that cited scPOEM R package
View scPOEM citation profile
Other R packages that scPOEM depends, imports, suggests or enhances
Complete documentation for scPOEM
Functions, R codes and Examples using the scPOEM R package
Full scPOEM package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

crossurr  
Cross-Fitting for Doubly Robust Evaluation of High-Dimensional Surrogate Markers
Doubly robust methods for evaluating surrogate markers as outlined in: Agniel D, Hejblum BP, Thiebau ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
msm  
Multi-State Markov and Hidden Markov Models in Continuous Time
Functions for fitting continuous-time Markov and hidden Markov multi-state models to longitudinal d ...
Download / Learn more Package Citations See dependency  
envirem  
Generation of ENVIREM Variables
Generation of bioclimatic rasters that are complementary to the typical 19 bioclim variables. ...
Download / Learn more Package Citations See dependency  
ibb  
R Wrapper for Istanbul Municipality Open Data Portal
Call wrappers for Istanbul Metropolitan Municipality's Open Data Portal (Turkish: Istanbul B ...
Download / Learn more Package Citations See dependency  

27,268

R Packages

233,548

Dependencies

72,590

Author Associations

27,205

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA