---
name: "kma_index"
section: "1"
platform: "linux"
package: "kma"
version: "1.4.21-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/kma_index"
---

# kma\_index(1)

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

## 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.