Following sprint 2 review, the following improvements need to be implemented into the generate_bed.py script. This may involve changes to the variant_validator_api_functions.
Create a function in variant_validator_api_functions.py to check to see if a bed file with the same name already exists. If it does, raise a message and do nothing. If it does not, proceed with bed file generation (issue #18)
Add padding around the exons (+10 either side) to the final bed file.
Concatenate the final columns of the intermediate bed file (exon number, gene symbol, transcript reference)
Also issue #63 (investigate rate limiting step - likely in variant_validator_api_functions)
Following sprint 2 review, the following improvements need to be implemented into the generate_bed.py script. This may involve changes to the variant_validator_api_functions.
Create a function in variant_validator_api_functions.py to check to see if a bed file with the same name already exists. If it does, raise a message and do nothing. If it does not, proceed with bed file generation (issue #18)
Add padding around the exons (+10 either side) to the final bed file.
Concatenate the final columns of the intermediate bed file (exon number, gene symbol, transcript reference)
Also issue #63 (investigate rate limiting step - likely in variant_validator_api_functions)