to write one...
>>>
>>>
>>> On Thu, Sep 25, 2014 at 6:55 AM, Curtis Hendrickson (Campus)
>>> wrote:
>>> Bjorn
>>>
>>> We'd be interested in this tool, as well. Any idea how close to functional
>>> it is?
>&g
d not on production, at this point.
>>
>> I don't see any related Trello card when searching on "star"
>>
>> Regards,
>> Curtis
>> Galaxy Admin @ University of Alabama at Birmingham
>>
>> -Original Message-
>> From: galaxy-
searching on "star"
>>
>> Regards,
>> Curtis
>> Galaxy Admin @ University of Alabama at Birmingham
>>
>> -Original Message-
>> From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:
>> galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Bjö
jörn
Grüning
Sent: Wednesday, September 24, 2014 3:15 PM
To: galaxy-dev@lists.bx.psu.edu
<mailto:galaxy-dev@lists.bx.psu.edu>; hoove...@helix.nih.gov
<mailto:hoove...@helix.nih.gov> >> David Hoover
Subject: Re: [galaxy-dev] tool for STAR RNA-seq aligner
Hi David,
-1 on the composite datatype for star reference genomes idea
Let's use the existing reference genome and index file infrastructure -
star is not sufficiently different from bwa or bowtie to warrant anything
different IMHO - it works for us but generating the index files manually is
a pai
l Message-
> From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:
> galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Björn Grüning
> Sent: Wednesday, September 24, 2014 3:15 PM
> To: galaxy-dev@lists.bx.psu.edu; hoove...@helix.nih.gov >> David Hoover
> Subject: Re: [galaxy-de
15 PM
> To: galaxy-dev@lists.bx.psu.edu; hoove...@helix.nih.gov >> David Hoover
> Subject: Re: [galaxy-dev] tool for STAR RNA-seq aligner
>
> Hi David,
>
> yes there is inital code in the https://testtoolshed.g2.bx.psu.edu/. I
> think Ross has done some work on it.
> The ma
of Alabama at Birmingham
-Original Message-
From: galaxy-dev-boun...@lists.bx.psu.edu
[mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Björn Grüning
Sent: Wednesday, September 24, 2014 3:15 PM
To: galaxy-dev@lists.bx.psu.edu; hoove...@helix.nih.gov >> David Hoover
Subject: Re:
Hi,
Am 24.09.2014 um 22:39 schrieb David Hoover:
Why didn't I see these before? Hmm, I thought I had searched both toolsheds...
I was kind of hoping someone had tackled this in a different way. It would be
nice if there was a composite datatype for the reference genome. It is
important for
Why didn't I see these before? Hmm, I thought I had searched both toolsheds...
I was kind of hoping someone had tackled this in a different way. It would be
nice if there was a composite datatype for the reference genome. It is
important for users to generate their own personal genome referen
Hi David,
yes there is inital code in the https://testtoolshed.g2.bx.psu.edu/. I
think Ross has done some work on it.
The main problem with Star is that is needs special indices (and a lot
of it) and it would be great to offer data managers for it.
Cheers,
Bjoern
Am 24.09.2014 um 22:05 schri
Hi,
I am developing a tool for STAR (https://code.google.com/p/rna-star/), and I
realize I may be reinventing another wheel. Has anyone else created a tool for
STAR? There's nothing else in the toolsheds for it yet.
David
David Hoover, PhD
Helix Systems Staff
SCB/DCSS/CI
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