Installation
pip install kraken-db-builder
Usage
kdb --help
kraken-db-builder --help
To create standard Kraken2 database
kdb --db-type standard
Before creating a standard database, you can try a smaller database like fungi.
kdb --db-type fungi
To use locally downloaded files, run the following command
kdb --db-name k2_test --genomes-dir /path/to/genomes --taxonomy-dir /path/to/taxonomy
To limit the number of genomes in the database, use the --limit option
kdb --db-name k2_test_100 --genomes-dir /path/to/genomes --limit 1000
Why kdb(kraken-db-builder)?
kdb was aimed to created to provide a simple and easy to use tool to build wide variety of databases with a single command.
Why not kraken2-build?
kraken2-build is a tool provided by Kraken2 to build Kraken2 database. It is a great tool but it is limited to build only Kraken2 database. kdb is a more generic tool which can be used to build databases for Kraken2, Centrifuge, Bracken, etc.
Documentation
1 maintainer
Metadata
1 maintainer
Release files for kraken-db-builder 0.1.3
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| kraken_db_builder-0.1.3.tar.gz | 5.9 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| kraken_db_builder-0.1.3-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 12.0 kB
Release files / kraken_db_builder-0.1.3.tar.gz
| Download URL | kraken_db_builder-0.1.3.tar.gz |
|---|---|
| Size | 5.9 kB |
| Tags | Source |
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Release files / kraken_db_builder-0.1.3-py3-none-any.whl
| Download URL | kraken_db_builder-0.1.3-py3-none-any.whl |
|---|---|
| Size | 6.1 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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