MCL¶
Markov Cluster Algorithm (MCL) is a fast and scalable unsupervised cluster algorithm for graphs based on simulation of (stochastic) flow in graphs.
MCL is available as a module on Apocrita.
Usage¶
To run the default installed version of MCL, simply load the mcl
module:
$ module load mcl
$ mcl
[mcl] usage: mcl <-|file name> [options], do 'mcl -h' or 'man mcl' for help
For usage documentation, run mcl --help.
Example job¶
Serial job¶
Here is an example job running on 1 core and 2GB of memory:
#!/bin/bash
#SBATCH --ntasks=1 # (or -n 1) Request 1 core
#SBATCH --mem-per-cpu=2G # Request 2GB RAM per core (2GB total)
#SBATCH --time=1:0:0 # (or -t 1:0:0) Request 1 hour runtime
module load mcl
mcxload -abc file.abc -o seq.mci
mcl seq.mci