MINTsC : Learning Multi-way INTeractions from single cell Hi-C

MINTsC Usage

Preparation

First of all, before cloning the MINTsC github package, go to the right directory that you would like to implement MINTsC. In the cmd terminal, do

cd {MINTsC directory}

then go on to the next step. {MINTsC directory} could be for example /storage10/kwangmoon/MINTsC.

1. Repository clone

For cloning the github repository, again on the cmd terminal, run the linux code

git clone https://github.com/keleslab/MINTsC.git

For R, we need the requirements as below :

• R: R installation (>=4.2.2)

2. Install/load required R packages

In R, run those codes that download the required packages for running MINTsC.

install.packages('pacman')
pacman::p_load(splines,dplyr,data.table,stringr,purrr,furrr,COUNT,optimParallel,
               RhpcBLASctl,purrr,doParallel,foreach)

Details about implementing codes can be found in the Tutorial of this github, which uses the Ramani et al.2017 scHi-C data as a tutorial.