manual

1.install software
  conda env create -n 2bRAD-M-20201225 --file tools/2bRAD-M-20201225-conda.yml
  conda activate 2bRAD-M-20201225

2.download genome, database and example data
  for NCBI database: perl tools/Download_2bRADTagDB_NCBI.pl your_database_path(default:./2B-RAD-M-ref_db_NCBI/)
  for GTDB database: perl tools/Download_2bRADTagDB_GTDB.pl your_database_path(default:./2B-RAD-M-ref_db_GTDB/)

3.test the Pipline with sample data
  1)simulate_50:
    perl bin/2bRADM_Pipline.pl -t 3 -l your_database_path/list_simulation -d your_database_path -o outdir -gsc 60 -qc no
  2)MSA1002_R1:
    perl bin/2bRADM_Pipline.pl -t 3 -l your_database_path/list_mock -d your_database_path -o outdir
    
Note:
  You need to activate the environment each time you use it. (conda activate 2bRAD-M-20201225)