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KMA_INDEX(1) User Commands KMA_INDEX(1)

NAME

kma_index - creates the databases needed to run KMA, from a list of fasta files given

DESCRIPTION

kma_index creates the databases needed to run KMA, from a list of fasta files given.

OPTIONS

Input/query file name (STDIN: "--") None
Output file Input/template file
Batch input file
File with contamination (STDIN: "--") None/False
Batch decon file
Add to existing DB None/False
Kmersize 16
Kmersize for template identification 16
Kmersize for indexing 16
Minimum length of templates kmersize (16)
Start Chain size 1 M
Mega DB False
Do not dump *.index.b False
Make Sparse DB ('-' for no prefix) None/False
Homology template 1.0
Homology query 1.0
Both homolgy thresholds has to be reached or
Version
Shows this help message

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

February 2019 kma_index 1.1.7