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| IVA_QC_MAKE_DB(1) |
User Commands |
IVA_QC_MAKE_DB(1) |
NAME¶
iva_qc_make_db - make a database as input for iva_qc
DESCRIPTION¶
usage: iva_qc_make_db [options] <output directory>
positional arguments:¶
- Directory_name
- Name of output directory
optional arguments:¶
- -h, --help
- show this help message and exit
- --add_to_ref Filename
- Filename of Genbank IDs or GI numbers to be added to database. Format is:
whitespace separated list of GI numbers on each line. One line defines one
genome (e.g. flu is 8 segments, so put 8 GI numbers on one line for one
flu reference)
- --skip_viruses
- Do not run kraken-build --download-library viruses when building
the database. If this option used, then --add_to_ref must also be
used
- --threads INT
- Number of threads to use [1]
- --minimizer_len INT
- Number to pass to kraken-build minimizer_len option [13]
- --max_db_size INT
- Number to pass to kraken-build max_db_size option [3]
- --verbose
- Be verbose
- --version
- show program's version number and exit
