https://github.com/lmdu/krait

An ultrafast tool for genome-wide survey of microsatellites and primer design
https://github.com/lmdu/krait

microsatellite primer repeats tandem

Last synced: 1 day ago
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An ultrafast tool for genome-wide survey of microsatellites and primer design

• Host: GitHub
• URL: https://github.com/lmdu/krait
• Owner: lmdu
• License: agpl-3.0
• Created: 2016-12-01T10:48:25.000Z (about 8 years ago)
• Default Branch: master
• Last Pushed: 2024-10-16T01:21:29.000Z (4 months ago)
• Last Synced: 2024-12-09T02:17:58.694Z (about 2 months ago)
• Topics: microsatellite, primer, repeats, tandem
• Language: HTML
• Homepage: http://krait.biosv.com
• Size: 91.7 MB
• Stars: 38
• Watchers: 5
• Forks: 9
• Open Issues: 22
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        


	Recommended to use Krait2 https://github.com/lmdu/krait2







	

	

	

	

	

	



Krait: Microsatellite investigation and primer design




	



# Table of Contents

* [Introduction](#introduction)

* [Features](#features)

* [Download](#download)

* [Documentation](#documentation)

* [Citation](#citation)

# Introduction

Krait is a robust and ultrafast tool with a user-friendly graphic interface for genome-wide investigation of microsatellites, which attempts to overcome the limitations of the currently available tools. Krait is written in Python and can be run as a standalone desktop application on Windows, Linux or Mac systems without dependencies. The microsatellite search engine is written in C and compiled as Python modules for import into Krait

# Features

* Identification of perfect SSRs

* Identification of imperfect SSRs (iSSRs)

* Identification of compound SSRs (cSSRs)

* Identification of VNTRs from extremely large genome

* Locating the SSRs in gene coding region

* Design primer for microsatellite

* Statistical analysis and plotting

* Supporting gzip compressed fasta as input file

* Supporting export FASTA, GFF3 or CSV

* Downloading DNA sequence from NCBI database

# Download

[https://github.com/lmdu/krait/releases](https://github.com/lmdu/krait/releases)

# Documentation

Download URL: [http://krait.biosv.com/en/latest](http://krait.biosv.com/en/latest)

中国镜像下载地址: [https://big.cdu.edu.cn/software/krait](https://big.cdu.edu.cn/software/krait)

# Citation

Du L, Zhang C, Liu Q, Zhang X, Yue B (2018) Krait: an ultrafast tool for genome-wide survey of microsatellites and primer design. Bioinformatics. 34(4):681-683. [10.1093/bioinformatics/btx665](https://doi.org/10.1093/bioinformatics/btx665)