Archiving/Documentation For Ngs Projects

Question

[empyrean999]

What software do you use or how do you archive NGS data analysis projects? What meta information regarding sequencing run and analysis do you store? Any suggestions on this?

Answer 1

[Pierre Lindenbaum]

In my bookmarks: https://github.com/TGAC/miso-lims (via @BioMickWatson )

MISO: An open source LIMS for small-to-large scale sequencing centres

[empyrean999]

Thank you !! But we do have lims available for sequencing lab. I wanted to know if any standards are available to archive/store project meta information for ex : assembly, annotation, mapping etc

Answer 2

[sarahhunter]

It kind of depends on your specific field of interest. Obviously, public repositories such as the SRA will tend to have requirements of the information you submit to them.

Are you aware of the work of the GSC (http://gensc.org)? They are interested in meta data minimum standards (specifically for environmental sequencing) but a lot of the standards they have developed are applicable to other areas of genomics and NGS.

You might find it useful to read the following papers: http://europepmc.org/abstract/MED/21552244 (about the MIxS standards) and http://europepmc.org/abstract/MED/21713030 (about GSC) And specifically, this part of the GSC website: http://gensc.org/gc_wiki/index.php/MIxS

[empyrean999]

Thanks. this is a good start for me..