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small dataset for NGS pipeline

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
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written by JoeDoasi • JoeDoasi

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

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written by Bastien Hervé Bastien Hervé

Hello,

Thank you for your reply.

This is a good start. I will try it.

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written by JoeDoasi • JoeDoasi

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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written by WouterDeCoster WouterDeCoster

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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written by JoeDoasi • JoeDoasi

Thank you.

I think it is a very good start.

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written by JoeDoasi • JoeDoasi

Hello Yousef ,

please use the ADD REPLY below a post you want to reply. I moved your post to a comment, but as you see this is not perfect.

Thanks!

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written by finswimmer finswimmer

Apologies and many thanks for your reply and the link of the NGS data.

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written by JoeDoasi • JoeDoasi

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