Command Line Interface¶
Design and test NGS barcodes.
usage: barcode [-h] [-v] {make,test} ...
Positional Arguments¶
- subcommand
Possible choices: make, test
Named Arguments¶
- -v
show program’s version number and exit
Sub-commands¶
make¶
- Make a set of barcodes, filter them for mononucleotide stretches and for
distances with other barcodes.
barcode make [-h] [-d DISTANCE] [-H] [-l LENGTH] [-s STRETCH] OUTPUT
Positional Arguments¶
- OUTPUT
output file
Named Arguments¶
- -d
minimum distance between the barcodes (int default=3)
Default: 3
- -H
use Hamming distance
Default: False
- -l
lenght of the barcodes (int default=8)
Default: 8
- -s
maximum mononucleotide stretch length (int default=2)
Default: 2
test¶
Test a set of barcodes.
barcode test [-h] [-d DISTANCE] [-H] [-o OUTPUT] INPUT
Positional Arguments¶
- INPUT
input file
Named Arguments¶
- -d
minimum distance between the barcodes (int default=3)
Default: 3
- -H
use Hamming distance
Default: False
- -o
list of good barcodes
Copyright (c) Jeroen F.J. Laros <J.F.J.Laros@lumc.nl>