Save ID mapping tables
Saving mappers from the command-line
The database ID mapping tables can be downloaded as csv files. Each file contains all the universal IDs for either metabolites or reactions followed by the corresponding cross-referenced identifiers in other databases.
The ID mapping tables are saved as mergem_univ_id_mapper_metabolites.csv
and
mergem_univ_id_mapper_reactions.csv
in the working directory.
The -s
argument can be used to save the ID mapping tables on the command line:
mergem -s
Saving mappers using Python script
When importing mergem into a python script, the save_mapping_tables()
function can be called to
save the mapping tables as shown below:
import mergem
mergem.save_mapping_tables()
Custom filenames for saving ID mappers
The mapping table filenames can be customized by providing the desired filenames as input to the function.
mergem.save_mapping_tables('custom_met_mapper_filename.csv', 'custom_reac_mapper_filename.csv')