We are using bowtie 2.1.0 in via a galaxy wrapper. Since there has been no
change in the bowtie command line options used by the wrapper, there are no
Similar for Tophat.
On Apr 10, 2013, at 3:05 PM, Lance Parsons <lpars...@princeton.edu>
> I noticed that the latest versions for Bowtie2 and Tophat2 listed on the Tool
> Dependencies page
> (http://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies) are 2.0.4 for
> Bowtie2 and 2.0.6 for Tophat2. Are these the latest supported versions?
> Does anyone know if it's advisable to go with the latest (Bowtie2 2.1.0 and
> Tophat 2.0.8) with Galaxy?
> I'm looking forward to these tools being moved to the ToolShed so updates to
> the underlying tools are accompanied by Galaxy tool version updates, but
> until then I'm just trying to make sure my users can use the latest versions
> that are compatible. Thanks.
> Lance Parsons - Scientific Programmer
> 134 Carl C. Icahn Laboratory
> Lewis-Sigler Institute for Integrative Genomics
> Princeton University
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