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Old 12-07-2013, 08:59 PM   #1
thejustpark
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Location: Pittsburgh

Join Date: Jul 2012
Posts: 28
Default Nothing happens after cuffcompare.

Hello all,

With a cuffmerge result (into ./cufflinks_all/merged.gtf), I am trying to cuffcompare it against a reference gtf (../public/publicCuffMergedLncProts/merged.gtf) as follows:

[...]$ cuffcompare -V -o ./testOut -r ../public/publicCuffMergedLncProts/merged.gtf -C ./cufflinks_all/merged.gtf
You are using Cufflinks v2.1.1, which is the most recent release.
Loading reference transcripts..
..reference annotation loaded
Prefix for output files: testOut
Processing qfile #1: ./cufflinks_all/merged.gtf
Loading transcripts from ./cufflinks_all/merged.gtf..
462 redundant cufflinks transfrags discarded.
Found 15380 transcripts with undetermined strand.
Tracking transcripts across 1 query files..
Cleaning up..
Done.

But after all this, nothing happens.
Of course, there are much more transcripts with determined strand (468,928).
Have you ever had this kind of situation?

Thanks in advance!
HJ.
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Old 12-07-2013, 09:33 PM   #2
thejustpark
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Default

Guys, please ignore this question.
It's my stupid mistake.

Now I want to delete this, but couldn't find the way.
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Old 12-09-2013, 06:02 AM   #3
westerman
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Location: Purdue University, Indiana, USA

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Default

Quote:
Originally Posted by thejustpark View Post
Guys, please ignore this question.
It's my stupid mistake.

Now I want to delete this, but couldn't find the way.
You should be able to 'edit' your post and then a 'delete' button should be available.
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