tcrsampler 0.1.1

Sample TCRs according to VDJ gene usage frequency

tcrsampler

Sample TCRs according to VDJ gene usage frequency

Install

pip install tcrsampler

Install default reference files:

python -c "from tcrsampler.setup_db import install_all_next_gen; install_all_next_gen(dry_run = False)"

Example

from tcrsampler.sampler import TCRsampler
t = TCRsampler(organism = 'human',db_file = 'alphabeta_db.tsv', ref_file= 'new_nextgen_chains_human_B.tsv')
t.make_ref_dict(max_sample = 100)
t.sample_ref_dict('TRBV1*01', 'TRBJ1-1*01',1)
t.sample([['TRBV1*01', 'TRBJ1-1*01',1], ['TRBV2*01', 'TRBJ1-1*01',1]])