tcr_pmhc_interface_analysis.apps.align_tcr_pmhcs

usage: python -m tcr_pmhc_interface_analysis.apps.align_tcr_pmhcs
       [-h] [--output OUTPUT] [--only-holo]
       [--log-level {debug,info,warning,error}]
       structures

Align TCR, pMHC, and TCR:pMHC on the TCR framework region or the floor of the MHC antigen binding groove.

Requirements:
    - PyMOL: https://www.pymol.org/

positional arguments:
  structures            path to the structures to align

options:
  -h, --help            show this help message and exit
  --output OUTPUT, -o OUTPUT
                        path to output the aligned files
  --only-holo           only align the holo structures based on either TCR CDR
                        sequences or mhc allele and peptide sequence.

Logging:
  Options for logging

  --log-level {debug,info,warning,error}
                        Level to log messages at (Default: 'warning')