Fast and accurately polish the genome generated by long reads.
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. To further improve the consensus accuracy of genomes assembled using HiFi long-reads, please use NextPolish2.
DOWNLOAD
click here or use the following command:
wget https://github.com/Nextomics/NextPolish/releases/download/v1.4.1/NextPolish.tgz
Note: If you get an error like version 'GLIBC_2.14' not found
or liblzma.so.0: cannot open shared object file
, Please download this version.
REQUIREMENT
INSTALL
pip install paralleltask
tar -vxzf NextPolish.tgz && cd NextPolish && make
UNINSTALL
cd NextPolish && make clean
TEST
nextPolish test_data/run.cfg
You can track updates by tab the Star
button on the upper-right corner at this page.
The complete user documentation is available here.