small dataset for NGS pipeline
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2.4 years ago
joe • 0

Dear bioinformaticians,

I would like to know if there is a small NGS raw data that can be used for analysis on a private PC.

The aim is to evaluate my pipeline (alignment, variant calling, annotation) and see if all commands are working before moving to the HPC.

Appreciated, Yousef

next-gen sequencing alignment genome • 634 views
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Hello,

have a look at the European Nucleotide Archive for finding data that fits your needs. Maybe a sample of this study?

fin swimmer

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Hello,

Thank you for your reply.

This is a good start. I will try it.

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a small NGS raw data

You may want to elaborate on:

  • organism of interest (human?)
  • sequencing technology (illumina?)
  • size of dataset
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I actually would like to know if there is clinical exome data available!

do you think clinical exome data will be exhaustive for the private PC?

thanks

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Why not take data attached to the publication of your interest ?

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