Question: Megblast Gis
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7.6 years ago by
United States
drhoads@uark.edu60 wrote:
We have a local install of Galaxy and are using it for training grad and undergrad students (using the Windshield Splatter data). We have a relatively new install and the Megablast seems to be doing something funny with the output in that column 2 which is supposed to be the GI of the database hit is now two numbers joined with an underline (see below). I need to tell my IT people what is wrong so they can correct the problem. BL1-1-3 157649053_111750 91.30 46 4 0 10 55 58541 58496 2e- 06 60.0 BL1-1-5 161788633_175843 100.00 26 0 0 15 40 48812 48787 4e- 04 52.0 -- Douglas Rhoads, Professor of Biological Sciences Director of Graduate Program in Cell and Molecular Biology 601 SCEN, Dept. of Biological Sciences, 1 University of Arkansas, Fayetteville, AR 72701-1201 drhoads(at), phone: 479-575-3251 FAX: 479-575-4010
galaxy • 638 views
ADD COMMENTlink modified 7.6 years ago by Peter Cock1.4k • written 7.6 years ago by drhoads@uark.edu60
gravatar for Peter Cock
7.6 years ago by
Peter Cock1.4k
European Union
Peter Cock1.4k wrote:
Which version of BLAST do you have? If you're using the "megablast" tool in Galaxy, then it will be NCBI "legacy" BLAST using the blastall binary. If you're using the (commented out by default) BLAST+ wrappers, then it will be using the blastn binary. There were changes to the ID handling in the tabular output in BLAST 2.2.25+ as I recall. Another important factor is how the BLAST database was made (with or without the -parse_seqids flag). Peter P.S. Questions like this about local installs might be better on the galaxy-dev list, CC'd.
ADD COMMENTlink written 7.6 years ago by Peter Cock1.4k
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