find_integrase(replicon_id, prot_file, out_dir, cfg)¶
Call Prodigal for Gene annotation and hmmer to find integrase, either with phage_int HMM profile or with intI profile.
- replicon_id (str) – The Replicon identifier to search integrase into
- prot_file (str) – the path to the fasta file containing the translation of the replicon.
- out_dir (str) – the relative path to the directory where prodigal outputs will be stored
- cfg (a
integron_finder.config.Configobject) – the configuration
None, the results are written on the disk