[EMBOSS] showfeat: joining compound features
Michael Thon
mthon at tamu.edu
Tue Sep 19 14:27:44 UTC 2006
Hello everyone - I am using showfeat to display blast similarity
features that are stored in a gff file. From the documentation, it
looks like showfeat can display multiple exon features on the same
line but can it also do this with similarity features? Here is an
example from my gff file:
Chr5:4535154,4542653 BLAST similarity 2475
5120 . . . Target "ref|XP_468448.1|"
Chr5:4535154,4542653 BLAST similarity 3142 3480
388 + . Target "ref|XP_468448.1|" 141 225
Chr5:4535154,4542653 BLAST similarity 4944 5120
304 + . Target "ref|XP_468448.1|" 248 306
Chr5:4535154,4542653 BLAST similarity 2475 2603
216 + . Target "ref|XP_468448.1|" 66 108
Chr5:4535154,4542653 BLAST similarity 2916 3017
182 + . Target "ref|XP_468448.1|" 107 140
Also, is there an emboss program that does showfeat's functions but
with a graphical, publication quality output? I am thinking of a
graphic with colored feature tracks, etc.
Thanks
Mike
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