How to use the refinem.cluster.Cluster function in refinem

def split(self, options):
        """Split command"""
        
        check_file_exists(options.scaffold_stats_file)
        check_file_exists(options.genome_file)
        make_sure_path_exists(options.output_dir)

        self.logger.info('Reading scaffold statistics.')
        scaffold_stats = ScaffoldStats()
        scaffold_stats.read(options.scaffold_stats_file)

        cluster = Cluster(1)
        cluster.split(scaffold_stats,
                        options.criteria1,
                        options.criteria2,
                        options.genome_file,
                        options.output_dir)

        self.logger.info('Partitioned sequences written to: ' + options.output_dir)

def dbscan(self, options):
        """dbscan command"""
        
        check_file_exists(options.scaffold_stats_file)
        check_file_exists(options.genome_file)
        make_sure_path_exists(options.output_dir)

        self.logger.info('Reading scaffold statistics.')
        scaffold_stats = ScaffoldStats()
        scaffold_stats.read(options.scaffold_stats_file)

        cluster = Cluster(options.cpus)
        cluster.dbscan(scaffold_stats,
                        options.num_clusters,
                        options.num_components,
                        options.min_pts,
                        options.dist_frac,
                        options.no_coverage,
                        options.no_pca,
                        options.genome_file,
                        options.output_dir)

        self.logger.info('Partitioned sequences written to: ' + options.output_dir)

def kmeans(self, options):
        """kmeans command"""
        
        check_file_exists(options.scaffold_stats_file)
        check_file_exists(options.genome_file)
        make_sure_path_exists(options.output_dir)

        self.logger.info('Reading scaffold statistics.')
        scaffold_stats = ScaffoldStats()
        scaffold_stats.read(options.scaffold_stats_file)

        cluster = Cluster(options.cpus)
        cluster.kmeans(scaffold_stats,
                        options.num_clusters,
                        options.num_components,
                        options.K,
                        options.no_coverage,
                        options.no_pca,
                        options.iterations,
                        options.genome_file,
                        options.output_dir)

        self.logger.info('Partitioned sequences written to: ' + options.output_dir)