Hi,

I have installed local galaxy. I used the Tophat to do the RNA-seq alignment 
and got a output file: splice junction in bed format.

I can not understand it clearly. What does the number 17, 14 ... in the column 
5 mean ? What does the 87,93 mean ? What does the 0, 4787 mean ? Can you 
explain a little bit to me ? Which tool can be used to view this file ?

Thanks,


track name=junctions description="TopHat junctions"
chr20      199821     204701     JUNC00000001     17        -        199821     
 204701      255,0,0     2        87,93     0,4787
chr20      204631     205520     JUNC00000002     14        -        204631     
 205520      255,0,0     2        96,87     0,802
chr20      205428     205775     JUNC00000003      9        -        205428     
 205775      255,0,0     2        92,91     0,256
chr20      205699     205958     JUNC00000004     15        -        205699     
 205958      255,0,0     2        87,92     0,167
chr20      205929     207067     JUNC00000005     31        -        205929     
  207067     255,0,0     2        95,97     0,1041
chr20      206977     207909     JUNC00000006     19        -        206977     
  207909     255,0,0     2        93,97     0,835
chr20      207884     212679     JUNC00000007     15        -        207884     
   212679    255,0,0     2        87,76     0,4719
chr20      207910     218238     JUNC00000008      1        -        207910     
   218238    255,0,0     2        61,39     0,10289
chr20       212628    218293     JUNC00000009     28        -        212628     
   218293    255,0,0     2        94,94     0,5571

________________________________

This e-mail message (including any attachments) is for the sole use of
the intended recipient(s) and may contain confidential and privileged
information. If the reader of this message is not the intended
recipient, you are hereby notified that any dissemination, distribution
or copying of this message (including any attachments) is strictly
prohibited.

If you have received this message in error, please contact
the sender by reply e-mail message and destroy all copies of the
original message (including attachments).
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

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

Reply via email to