Table of Contents
Split Allele Database
This script splits a single allele database file into multiple files; one sequence per file.
Inputs
- Allele database file.
Running the Script
stec.py allele_split -q /path/to/query_folder -o /path/to_output_folder
An example with the query files in the query folder, and the desired outputs in the split_alleles folder (all in the current working directory).
Usage
usage: stec.py allele_split [-h] [-version] [-v verbosity] [-q query_path]
[-o output_path]
Split combined allele files into individual files
optional arguments:
-h, --help show this help message and exit
-version, --version show program's version number and exit
-v verbosity, --verbosity verbosity
Set the logging level. Options are debug, info, warning, error, and critical. Default is info.
-q query_path, --query_path query_path
Specify name and path of folder containing query files in FASTA format. If not provided, the query folder in the current working directory will be used
-o output_path, --output_path output_path
Specify name and path of folder into which the split allele files are to be written. If not provided, the split_alleles folder in the current working directory will be used
Outputs
The provided output folder will contain all sequences in the provided database files, one per file.
Additional information regarding this functionality is available in the allele_split documentation.