Metadata-Version: 2.1
Name: kitsune
Version: 1.2.8
Summary: tools for finding an optimal kmer
Home-page: https://gitlab.com/natapol.por/ksiga
Author: Natapol Pornputtapong
Author-email: natapol.por@gmail.com
License: Apache 2.0
Keywords: kitsune
Platform: UNKNOWN
Classifier: Development Status :: 5 - Production/Stable
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Programming Language :: Python :: 3.7
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Operating System :: POSIX :: Linux
Classifier: Operating System :: MacOS :: MacOS X
Requires-Dist: numpy (>=1.1.0)
Requires-Dist: scipy (>=0.18.1)
Requires-Dist: biopython (>=1.68)
Requires-Dist: tqdm (>=4.32)

kitsune
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1. Kitsune
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Kitsune is a toolkit for evaluate the lenght of optimal k-mer in dataset.

2. Basics
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Kitsune provides many methods to evaluate the amount of information by given k-mer.
This quantitative measurement could be use to calculate the amount of need k-mer

3. Installation
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a. install it throught pip
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.................
$pip install kitsune
.................
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4. Usage
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a. Calculate k-mer from CRE, ACF, and OFC value
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.................
$kitsune cre genome_fasta/* -ks 5 -ke 10
$kitsune acf genome_fasta/* -ks 5 -ke 10
$kitsune ocf genome_fasta/* -ks 5 -ke 10
.................

b. calculate deistance matrix
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.................
$kitsune matrix genome_fasta/* -ks 5 -ke 10
.................
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