KrasnitzLab / SCclust

Segmentation and Clustering of Single Cell Sequencing Copy Number Profiles

SCclust R package

The SCclust package implements feature selection based on breakpoints, permutations for FDRs for Fisher test p-values and identification of the clone structure in single cell copy number profiles.

Threre are two alternative ways to install SCclust package:

• installation from source;

• intallation as a conda package.

Installation from source

• Download SCclust source package from Github: https://github.com/KrasnitzLab/SCclust/archive/refs/tags/1.0.7.tar.gz into your working directory;

• Run R and install the package from downloaded source:

  install.packages("SCclust-1.0.7.tar.gz")
  

Conda installer

• The SCclust package can also be installed using KrasnitzLab Anaconda channel. First create a new conda environment:

  conda create -n scclust
  conda activate scclust
  

  and after that install SCclust inside it:

  conda install -c bioconda -c conda-forge -c krasnitzlab scclust