BLAST visualizations

[peterjc]

It would be great to offer some way of displaying BLAST output (ideally at least BLAST XML and tabular) using the Galaxy Visualizations framework (Goecks et al. 2013).

[peterjc]

See also the work from Gildas Le Corguillé presented at GCC2014:

• https://wiki.galaxyproject.org/Events/GCC2014/Lightning#Private_BLAST:_Using_Galaxy
• https://wiki.galaxyproject.org/Events/GCC2014/Lightning?action=AttachFile&do=view&target=LeCorguill%C3%A9BLAST.pdf
• http://jh.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7f7d2565-9090-45fe-9baf-0c1309fe5a74

[bgruening]

@peterjc the biojs project is working on a BlAST Vis. ping @greenify

[wilzbach]

Hey :)

I did work on this a couple of months ago as part of the crossb.io project.

Here's the current demo of the BLAST dashboard - however it is in a very early stage. It takes the BLAST XML as input. Let me know if you have ideas or specific requirements - I would be glad to help you guys ;-)

[bgruening]

Hi Seb,

I had a first docker image if this running at some point. Have you updated the code since then? Would you be interested in putting this into a VIS/IE? We need approximately a few hours together?

Cheers,
Bjoern

[wilzbach]

Hi Björn,

I had a first docker image if this running at some point. Have you updated the code since then?

Nope - I did some minor modifications on the end of March, but only to get it work nicely with npm.

Would you be interested in putting this into a VIS/IE?

Sure - should we keep it as it is or do you want to modify some parts?
As it is a npm package, I could use biojs2galaxy again :)

We need approximately a few hours together?

Yes - I do have time :)

[bgruening]

With the amazing help from @greenify we got this working:

@peterjc where do you want to me put this VIS? Here? IUC? galaxytools next to the protein VIS?
Or do you expect a different kind of visualization?

[peterjc]

That looks very slick. I'm happy for it to join the galaxy_blast repository, but https://github.com/galaxyproject/tools-iuc would work too.

[Long term, we could end up forking peterjc/galaxy_blast to galaxyproject/galaxy_blast, or even merged into https://github.com/galaxyproject/tools-iuc for IUC administration?]

[hexylena]

Commenting on this as I've done work in a related direction...

Not technically a viz plugin (it's a tool) though.

[bgruening]

Just to collect a few more: http://brig.sourceforge.net/ (is not maintained anymore, as it seems)

[hexylena]

I tried to use that and nearly wrapped it for Galaxy, but ended up deciding it wasn't all that useful. Happy to wrap if need be.