Manage Genomes

1#!/usr/bin/env python3
2"""
3Genome reference management for nf-core pipelines.
4
5Manages downloading, caching, and accessing genome references from iGenomes.
6Supports auto-download when references aren't available locally.
7
8Usage:
9    python manage_genomes.py list
10    python manage_genomes.py check GRCh38
11    python manage_genomes.py download GRCh38
12    python manage_genomes.py params GRCh38
13"""
14
15import argparse
16import