The goal of scHiCSRS is to impute single cell HiC data using a self representation smoothing approach.
The scHiCSRS package has the following R-package dependencies: SAVER, keras, tensorflow, Rtsne, ggplot2, ggpubr, and mclust. The dependent packages will be automatically installed along with scHiCSRS. You can use the following commands to install scHiCSRS from GitHub.
# Install and load "devtools" package.
install.packages("devtools")
library("devtools")
# Install "scHiCSRS" package from github.
install_github("Queen0044/scHiCSRS")This is a basic example which shows you how to solve a common problem:
library(scHiCSRS)
## data("simudat")
#simudat_res=SRS(simudat, windowsize=2, nbins=61, epochs = 100, estimates.only = FALSE)For more information of functions, please read the vignettes.