Re: [galaxy-dev] Blast+: new feature filter/mask... by taxid before job in one task
Hi Thomas,
are you interested in implementing it on your own?
I'm not an blast expert, so sorry for the question, but is there an
public repository where all unit-counts can be download as
wmasker.obinary format, preferable in the correct folder structure as
described in http://www.ncbi.nlm.nih.gov/books/NBK1763/. Or do you need
to create such files on your own?
What we/you probably can do is to create a new windowmasker.loc file
pointing to each taxid and add a that new parameter to the wrapper.
Cheers,
Björn
Hi guys,
We recently installed NCBI BLAST + to our local Galaxy instance and
now we need to provide the possibility to filter/mask … by taxon id
(taxid) using the command line option (-window_masker_taxid) of BLAST
(cf. http://www.ncbi.nlm.nih.gov/books/NBK1763/) before the job will
be performed in one task.
However searching in the documentation and the mailing list, I did not
find anything about this.
So it would be great to provide the possibility to subselect by taxid
(e.g. NCBI BLAST server http://blast.ncbi.nlm.nih.gov/Blast.cgi) by
changing the BLAST integration.
We believe this could be of common interest. It would be great if
anybody could comment on this.
Thanks a lot, Thomas
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at:
http://galaxyproject.org/search/mailinglists/