Thanks, https://github.com/biopython/biopython/pull/385
You can't (yet) do this via the BLAST wrappers.
You would have to pull out the full sequences using the makeblastdb wrapper, then edit them with another Galaxy tool. Or work directly from the FASTA file if you have it.
Peter
On Wed, Oct 22, 2014 at 6:57 AM, Matthias Enders m.enders@german-seed-alliance.de wrote:
Hi Peter,
I added a new Issue, hope everything is correct.
Kind regards, Matthias Enders
-----Ursprüngliche Nachricht----- Von: Peter Cock [mailto:p.j.a.cock@googlemail.com] Gesendet: Tuesday, October 21, 2014 11:25 PM An: Matthias Enders Cc: galaxy-dev@lists.bx.psu.edu Betreff: Re: [galaxy-dev] Blast+ Wrapper: blastdbcmd: range parameter
Hi Matthias,
Can you file an issue here about adding this here please? https://github.com/peterjc/galaxy_blast
Thanks!
Peter
On Tue, Oct 21, 2014 at 10:36 AM, Matthias Enders m.enders@german-seed-alliance.de wrote:
Hello all,
I use the ToolShed NCBI Blast+ Wrappers (https://toolshed.g2.bx.psu.edu/repository?repository_id=1d92ebdf7e8d466c) and I tried to retrieve sequence information from databases.
The blastdbcmd comes with the feature to extract a given range of the sequence:
-Range string Range of sequence to extract (Format: start-stop)
Is this parameter / functionality also part of the wrapper, how can I use this functionality?
Thanks, Matthias
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