Question: Version of BLAST nt database on Main
0
gravatar for jenn.drummond
3 months ago by
jenn.drummond10 wrote:

Hi. I'm sure this answer must be common knowledge, but I can't figure it out: why is version 17apr2014-nt the latest available BLASTn database on usegalaxy.org? I normally blast from the command line, but my system is having some hiccups at the moment. I came to blast a few dozen sequences on Galaxy as a quick sanity check, and found that the database is ancient.

I wouldn't demand up-to-the-second reference data from a free online resource, but four years does seem like a little long between updates. I understand that workflows might reasonably require the user to provide their own reference data, but surely you don't want a zillion copies of BLAST references sitting on the server.

Apologies if this answer is out there and I've missed it in my searching, but everything I've found is about installing BLAST databases on local Galaxy servers.

ADD COMMENTlink modified 3 months ago by Jennifer Hillman Jackson25k • written 3 months ago by jenn.drummond10
0
gravatar for Jennifer Hillman Jackson
3 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Megablast was primarily available at Galaxy Main https://usegalaxy.org for Metagenomic analysis and there are now newer methods.

All Galaxy tutorials: https://galaxyproject.org/learn/

Metagenomics tutorials: http://galaxyproject.github.io/training-material/topics/metagenomics/

And it is true that this data has not been updated for some time due to the replacement tools/methods. We will probably be updating these indexes when we do the next set of data updates, but this specific data as a priority has not been set yet. If you want to use newer databases now, setting up and using your own Galaxy would be how. A Cloudman Galaxy is a popular choice for scientific users. Please see: https://galaxyproject.github.io/

Thanks! Jen, Galaxy team

ADD COMMENTlink written 3 months ago by Jennifer Hillman Jackson25k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 68 users visited in the last hour