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Nextomics / NextPolish

Fast and accurately polish the genome generated by long reads.
GNU General Public License v3.0
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How to use Nextpolish on NextDenovo draft assembly #105

Closed DrNavi closed 1 year ago

DrNavi commented 1 year ago

Hi, I am Dr. Naveed, i am new to perform Genome Assembly. I have nanopore long read data and I successfully used NextDenovo to draft a fungus assembly. I have got nd.asm.fasta file after assembly from NextDenovo, 11 contigs are generated. Now, I wanted to polish my draft assembly using NextPolish tool. What command I can use for polishing because when I saw the tutorial, I found this command is used to make input file for long read polishing,

ls reads1.fq reads2.fa.gz > lgs.fofn

However, I just got one output file from NextDenovo, which I want to polish.....

I hope I made my question clear here..... I need guidance

moold commented 1 year ago

reads1.fq reads2.fa.gz are the nanopore long read data files, same input as NextDenovo

DrNavi commented 1 year ago

Dear Moold,

I only get only sequencing file from the company, "KI.fasta.tar.gz