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Project description
Apclusterv: Clustering viral genomes with Affinity Propagation
This software works in Python3.
Dependencies:
Pandas
Numpy
Networkx
Scipy
vConTACT2 (bioconda channel)
cluster_one (http://www.paccanarolab.org/cluster-one/)
Usage:
apcluster.sh input_gene_fasta gene_to_contig_map out_dir
input_gene_fasta is the protein sequence file output from Prodigal gene prediciton for viral contigs. An example gene_contig_map can be found in data/
Parameter configuration:
configure parameters in config file.
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