Hi Ateequr,

This post from today has information another member found at seqanswers.com, directly from the CuffLinks/Merge/Diff tool author:
http://user.list.galaxyproject.org/Re-1-cuffcompare-or-cuffmerge-td4581029.html

Best,

Jen
Galaxy team

On 4/17/12 8:00 AM, Ateequr Rehman wrote:
Dear All
I have simple and question for cuffdiff
should we run cuffdif on merge transcript file (produced by cuffmerge)
and concatenate data sets
or directly on cufflink produced files, in the later case, i have two
transcript files resulting from cufflink on sample 1 and 2 respectively,
result using sample 1 as transcripts are not the same when i am suing
sample 2 as transcript

i am bit confused what should be the correct way

any help is very much welcomed

Best
ateeq
Ateequr Rehman
House No. 2 ground floor
Blauenstr. 10
79115 Freiburg im Breisgau


___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

   http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

   http://lists.bx.psu.edu/

--
Jennifer Jackson
http://galaxyproject.org
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

 http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

 http://lists.bx.psu.edu/

Reply via email to