barcode_splitter_script

"barcode_splitter_script.py" is a non-interactive, command-line version of "barcode_splitter.py". For the input format, see the page for "barcode_splitter.py". The following options are available at the command line:

• -h, --help: Display the list of options
• -b, --barcodefile: Name of the CSV file listing input file names, barcodes, and output file names. File paths should be with respect to the directory where "barcode_splitter_script.py" and "tagdigger_fun.py" are stored.
• -a, --adapter: Name of the adapter set used to make the libraries. Current options include "PstI-MspI-Poland", "PstI-MspI-Hall", "PstI-MspI-Clark", "NsiI-MspI-Hall", and "NsiI-MspI-Clark". More can be added by editing the adapter dictionary near the top of "tagdigger_fun.py".

Example:

python barcode_splitter_script.py -b mybarcodes.csv -a PstI-MspI-Poland

Individual FASTQ files for each barcode in each library will be output.