kma_index(1)
creates the databases needed to run KMA, from a list of fasta files given
Description
KMA_INDEX
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.