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moold committed Apr 26, 2023
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[![Documentation Status](https://readthedocs.org/projects/nextpolish/badge/?version=latest)](https://nextpolish.readthedocs.io/en/latest/?badge=latest)

# NextPolish
NextPolish is used to fix base errors (SNV/Indel) in the genome generated by noisy long reads, it can be used with short read data only or long read data only or a combination of both. It contains two core modules, and use a stepwise fashion to correct the error bases in reference genome. To correct/assemble the raw third-generation sequencing (TGS) long reads with approximately 10-15% sequencing errors, please use [NextDenovo](https://github.com/Nextomics/NextDenovo).
NextPolish is used to fix base errors (SNV/Indel) in the genome generated by noisy long reads, it can be used with short read data only or long read data only or a combination of both. It contains two core modules, and use a stepwise fashion to correct the error bases in reference genome. To correct/assemble the raw third-generation sequencing (TGS) long reads with approximately 10-15% sequencing errors, please use [NextDenovo](https://github.com/Nextomics/NextDenovo). To further improve the consensus accuracy of T2T genomes assembled using HiFi long-reads, please use [NextPolish2](https://github.com/Nextomics/NextPolish2).

## Installation

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