This is a test version of Biostars. For the public version, visit https://www.biostars.org.
dummi fastq file for DNAsequencing

Can I get dummy fastq paired end human genomic data for DNA sequencing? Let me know any available source. The fastq file size is expected no be more than 1G each.

next-gen sequencing
• 2,396 views • link
updated by Devon Ryan Devon Ryan • written by shuksi1984 • shuksi1984

You can use ART for simulating reads from a genome or you can download actual dataset from SRA or ENA databases.

• 1 views • link
written by Sej Modha Sej Modha

Fastq file that I received was ~2GB each. But I want file size to be in MBs or KBs just for the sake to testing the tools in my application. Also, the fastq file should give some rsids and indels after passing through the pipeline. I used the SP1.fq from the given link enter link description here but this could not give any rsids after analysis.

• 1 views • link
written by shuksi1984 • shuksi1984

You'd be best off following the advice from Sej Modha and using simulated reads then. Otherwise you'd need to start with a full dataset and filter out reads aligning to a couple example regions matching your needs.

• 1 views • link
written by Devon Ryan Devon Ryan

1 answer

Yes, there are many examples on ENA, just search for something relevant. Note that much of the human data will be from cell lines, for obvious privacy issues.

• 1 views • link
written by Devon Ryan Devon Ryan

Log in to answer this question.

More posts like this