search_genes API reference

macsypy.search_genes.search_genes(genes, cfg)

For each gene of the list, use the corresponding profile to perform an Hmmer search, and parse the output to generate a HMMReport that is saved in a file after Hit filtering. These tasks are performed in parallel using threads. The number of workers can be limited by worker_nb directive in the config object or in the command-line with the “-w” option.

Parameters:

• genes (list of macsypy.gene.Gene objects) – the genes to search in the input sequence dataset
• cfg (macsypy.config.Config object) – the configuration object