kma_index - creates the databases needed to run KMA, from a list
of fasta files given
kma_index creates the databases needed to run KMA, from a list of
fasta files given.
- -i
- Input/query file name (STDIN: "--") None
- -o
- Output file Input/template file
- -batch
- Batch input file
- -deCon
- File with contamination (STDIN: "--") None/False
- -batchD
- Batch decon file
- -t_db
- Add to existing DB None/False
- -k
- Kmersize 16
- -k_t
- Kmersize for template identification 16
- -k_i
- Kmersize for indexing 16
- -ML
- Minimum length of templates kmersize (16)
- -CS
- Start Chain size 1 M
- -ME
- Mega DB False
- -NI
- Do not dump *.index.b False
- -Sparse
- Make Sparse DB ('-' for no prefix) None/False
- -ht
- Homology template 1.0
- -hq
- Homology query 1.0
- -and
- Both homolgy thresholds has to be reached or
- -v
- Version
- -h
- Shows this help message
This manpage was written by Andreas Tille for the Debian
distribution and can be used for any other usage of the program.