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 are: Desc: Default:
- -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
- -nbp
-
No bias print False
- -v
-
Version
- -h
-
Shows this help message
AUTHOR
This manpage was written by Nilesh Patra for the Debian distribution and can be used for any other usage of the program.