Table 2 List of functions of the SynGenes class in Python
Function name | Function | Parameters |
|---|---|---|
updateSynGenes() | Download SynGenes database from GitHub repository (stable branch) | verbose (bool): Print messages. Default is True |
fixGeneName() | Fix Gene Name according to the SynGenes database | geneName (str): Gene name to be fixed type (str): Type of gene (mt = Mitochondrial, cp = Chloroplast). Default is mt verbose (bool): Print messages. Default is True |
buildQuery() | Build a query for Entrez search | geneName (str): Gene name to search, must be in the correct format, use the function fixGeneName() to fix the gene name type (str): Type of gene (mt = Mitochondrial, cp = Chloroplast). Default is mt searchType (str): Type of search (Title, Abstract, All Fields, MeSH Terms). Default is All Fields verbose (bool): Print messages. Default is True |
buildJson() | Build a JSON file with the data of SynGenes database | fileName (str): Name of the JSON file. Default is SynGenes.js pathSaveFile (str): Path to save the JSON file. Default is SynGenes folder, in the current working directory verbose (bool): Print messages. Default is True |
versionSynGenes() | Show the version of SynGenes database | None |