genome_bed.py - Create a bed file tiling a genome from a fai file¶
- Tags
Python
This program takes an indexed genome and creates windows of a certain size.
It also takes two input parameters: the window/tile size (bases) and the shift size. By default the shift size is equal to the window size. The default window size is 1000.
Usage¶
python genome_bed -g <genome.fai> -o <output.bed> -w window size -s shift size
Command line options¶
usage: genome-bed [-h] [--version] [-g GENOME_FILE] [-w WINDOW] [-s SHIFT]
[--timeit TIMEIT_FILE] [--timeit-name TIMEIT_NAME]
[--timeit-header] [--random-seed RANDOM_SEED] [-v LOGLEVEL]
[--log-config-filename LOG_CONFIG_FILENAME]
[--tracing {function}] [-? ?] [-I STDIN] [-L STDLOG]
[-E STDERR] [-S STDOUT]
genome-bed: error: argument -?: expected one argument