MCCD-WN

MCCD-WN stands for Maximal Clique based Community Detection algorithm for undirected Weighted Network. This algorithm uses a similarity matrix constructed by incorporating information obtained from maximal-cliques and leveraging both the local and global importance of nodes. This algorithm is developed for a sparse (OTU/ ASV co-abundance) network.
In order to run the code, please make sure that the following R pacakges are installed:
I. data.table
II. igraph
III. rARPACK
The code was tested on Ubuntu 22.04.1 LTS (GNU/Linux 5.15.0-48-generic x86_64) having gcc version 11.2.0 and R version 4.2.1 installed on it.
You just need to execute the shell script (command.sh)
Before executing the script, kindly make all necessary changes in the file itself.
If you face any difficulties to run this code or want to apply the entire workflow as used in [1] for analysing your OTU/ ASV co-abundance networks, please feel free to write an email to anirban.bhar@uni-greifswald.de and we would be happy to assist you or share the rest of the code.
If you find MCCD-WN and/ or the entire workflow useful for your project, please cite the following publication:


[1] Bhar A, Gierse LC, Meene A, Wang H, Karte C, Schwaiger T, Schröder C, Mettenleiter TC, Urich T, Riedel K and Kaderali L. (2022) Application of a maximal-clique based community detection algorithm to gut microbiome data reveals driver microbes during influenza A virus infection. Front. Microbiol. 13:979320. doi: 10.3389/fmicb.2022.979320