transplanttoolbox_victor package¶
Submodules¶
transplanttoolbox_victor.conversion_functions module¶
transplanttoolbox_victor.conversion_functions_for_VXM module¶
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transplanttoolbox_victor.conversion_functions_for_VXM.allele_code_ags(allele_codes_list, pop)[source]¶
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transplanttoolbox_victor.conversion_functions_for_VXM.convert_allele_list_to_ags(hla_allele_list)[source]¶ This function can be called if a list of alleles has to be converted to antigens. Input format is a list and the corresponding antigens and rules will be printed out
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transplanttoolbox_victor.conversion_functions_for_VXM.main(args)[source]¶ Main entry point allowing external calls
Parameters: args ([str]) – command line parameter list
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transplanttoolbox_victor.conversion_functions_for_VXM.parse_args(args)[source]¶ Parse command line parameters
Parameters: args ([str]) – command line parameters as list of strings Returns: command line parameters namespace Return type: argparse.Namespace
transplanttoolbox_victor.reverse_conversion module¶
transplanttoolbox_victor.reverse_conversion_27 module¶
transplanttoolbox_victor.reverse_table module¶
transplanttoolbox_victor.skeleton module¶
This is a skeleton file that can serve as a starting point for a Python console script. To run this script uncomment the following line in the entry_points section in setup.py:
[console_scripts] fibonacci = transplanttoolbox_victor.skeleton:run
Then run python setup.py install which will install the command fibonacci inside your current environment. Besides console scripts, the header (i.e. until _logger…) of this file can also be used as template for Python modules.
Note: This skeleton file can be safely removed if not needed!
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transplanttoolbox_victor.skeleton.fib(n)[source]¶ Fibonacci example function
Parameters: n (int) – integer Returns: n-th Fibonacci number Return type: int
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transplanttoolbox_victor.skeleton.main(args)[source]¶ Main entry point allowing external calls
Parameters: args ([str]) – command line parameter list
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transplanttoolbox_victor.skeleton.parse_args(args)[source]¶ Parse command line parameters
Parameters: args ([str]) – command line parameters as list of strings Returns: command line parameters namespace Return type: argparse.Namespace
transplanttoolbox_victor.virtual_crossmatch module¶
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transplanttoolbox_victor.virtual_crossmatch.main(args)[source]¶ Main entry point allowing external calls
Parameters: args ([str]) – command line parameter list
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transplanttoolbox_victor.virtual_crossmatch.parse_args(args)[source]¶ Parse command line parameters
Parameters: args ([str]) – command line parameters as list of strings Returns: command line parameters namespace Return type: argparse.Namespace
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transplanttoolbox_victor.virtual_crossmatch.setup_logging(loglevel)[source]¶ Setup basic logging
Parameters: loglevel (int) – minimum loglevel for emitting messages
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transplanttoolbox_victor.virtual_crossmatch.vxm_allele_codes(allele_codes_list, donor_ethnicity, recepient_UA_list)[source]¶
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transplanttoolbox_victor.virtual_crossmatch.vxm_gls(donor_gl_string, donor_ethnicity, recipient_UA_list)[source]¶