raw_gene_prediction

Script for raw (only blast based) protein prediction.

1. run blast with recommended blast options: -outfmt 5 -gapopen 11 -gapextend 2 -dust no -soft_masking

2. run raw_gene_prediction

usage

./raw_prediction.py query_seqs genome blast_output short_name output

optional arguments:
--genetic-code GENETIC_CODE altrnative genetic code in a form: "TAA:Q;TAG:Q"
--threads THREADS number of threads
--hits HITS number of hits for one protein