Access to ONT fasta format reads?

Question

Access to ONT fasta format reads?

bitcometz opened this issue 5 years ago · 3 comments

Hello,
The fast5 for ONT data is so big.
Is there any access to all the ONT reads or the long ONT reads (99 Gbp of data in reads >50 kbp, 32x) in the format of "fasta.gz".
It would be much more convenient to download the data and usually doing assembly or SV detection will not need the quality information.

Thanks!

Answer 1 · 2019-07-12T14:13:22.000Z

There is a fastq.gz file for the all the reads, it's 140g zipped so you could just extract the reads >50kb from there? Is that not sufficient for what you want to do?

Answer 2 · 2019-07-19T06:33:41.000Z

Thanks ! Could you give the URL to download the 140g zipped file.

Best

Answer 3 · 2019-07-19T13:12:00.000Z

It's in the readme under the rel2 section: https://github.com/nanopore-wgs-consortium/CHM13#rel2-genomic-dna. There are also instructions to download via AWS tools for faster transfer though wget will work on the posted links.