How to convert .tar file to fasta file?
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4.1 years ago

Hi everyone,

I have downloaded the reference human genome hg38.tar.gz from John Hopkins website. I want to convert it to fasta file so I can build my index genome with HISAT2. Do you know how I should convert this .tar.gz to .fa ? When I open the .tar file, there are files as genome.1.ht2 (1Gb), genome.2.ht2 (0.7 Gb), do I still need to build the index? Or are these .ht2 files the indexed genome on which I can align my reads?

Thanks

hisat2 RNA-Seq fasta • 5.8k views
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Entering edit mode
4.1 years ago
ashish ▴ 680

This is a readymade index, you can uncompress and directly use it for read alignment. If you want to generate the original genome used for creating this index use hisat2-inspect but its not required.

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