mcl_system_cmd: Call MCL program for graph partitioning (internal).

In dputhier/scigenex: The scigenex package (Single-Cell Informative GENe Explorer)

Call MCL program for graph partitioning (internal).

Description

Call MCL program for graph partitioning (internal).

Usage

mcl_system_cmd(object = NULL, inflation = inflation, threads = 1)

Arguments

object	a ClusterSet object.
inflation	numeric. The inflation parameter used to control the granularity of the clustering.
threads	integer. The number of threads to use.

Details

This function call the MCL program for graph partitioning. MCL is a graph clustering algorithm that detects clusters of nodes in a graph based on the flow of information through the edges. It is a fast and efficient algorithm that can be used for clustering large-scale graphs.

Value

a ClusterSet object with the updated parameters.

Warnings

With the current implementation, this function only works only on UNIX-like plateforms.

MCL should be installed. Run the install_mcl command to install it.

References

- Van Dongen S. (2000) A cluster algorithm for graphs. National Research Institute for Mathematics and Computer Science in the 1386-3681.

dputhier/scigenex documentation built on May 31, 2024, 8:59 a.m.