Question: Archiving/Documentation For Ngs Projects
3
gravatar for empyrean999
7.5 years ago by
empyrean999170
Canada
empyrean999170 wrote:

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?

data ngs analysis • 1.5k views
ADD COMMENTlink modified 7.5 years ago by sarahhunter600 • written 7.5 years ago by empyrean999170
0
gravatar for Pierre Lindenbaum
7.5 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum131k wrote:

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

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

ADD COMMENTlink written 7.5 years ago by Pierre Lindenbaum131k

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

ADD REPLYlink written 7.5 years ago by empyrean999170
0
gravatar for sarahhunter
7.5 years ago by
sarahhunter600
Cambridge, UK
sarahhunter600 wrote:

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

ADD COMMENTlink written 7.5 years ago by sarahhunter600

Thanks. this is a good start for me..

ADD REPLYlink written 7.5 years ago by empyrean999170
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