In mkarikom/RSoptSC: Low-Rank Factorization for Subspace-clustering

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/"
)

RSoptSC

Updates

• Demo SoptSC at vignette("Joost_et_al")

• Read the SoptSC article in NAR

• SoptSC is also available as a MATLAB package here

Installation

install.packages("devtools")
library(devtools)
install_github("mkarikom/RSoptSC")

Features

• Inference of cell-cell communication between single cells

• Integration of multiple analyses in a consistent mathematical framework: clustering, marker genes, pseudotime, and lineage inference

• Cell-cell similarity matrix construction to improve clustering

• NMF-based marker gene identification

• Prediction of the number of clusters present (via eigengap properties of the similarity matrix)

• Prediction of the initial cell in pseudotime

Documentation

Full details of RSoptSC and examples are available here.

mkarikom/RSoptSC documentation built on May 10, 2023, 1:10 a.m.