Question: How To Exon-Intron Map With Given Coordinates?
0
gravatar for manish
5.9 years ago by
manish0
manish0 wrote:

Hi,

I have transcript coordinate data and i need to plot intron-exon map from it.

In the table below T1, T2 ... are Transcirtps and E1, E2 ... are exons. Their corresponding coordinates range is given 0-1205 whic means starting from 0 to 1205.

                E1    E2    E3    E4    E5    E6 
            T1    0-1205    1206-1261    1262-1325    1326-1396    1397-1469    
            T2    0-1205    1206-1261    1262-1325    1326-1396    1397-1420    1421-1469
            T3    0-1205        1206-1269    1270-1340    1341-1364    1365-1413
            T4    0-1205        1206-1269    1270-1340    1341-1413

How can i plot it like image shown in Data visualisation -- exon/intron map? post.

Regards

visualization isoform • 1.3k views
ADD COMMENTlink modified 5.9 years ago by Alex Reynolds28k • written 5.9 years ago by manish0
0
gravatar for Vitis
5.9 years ago by
Vitis2.2k
New York
Vitis2.2k wrote:

Gbrowse has a nice system to visualize this kind of structure. I'm sure some of the bio::graphics perl modules used by Gbrowse could be used as standalone script to make such graphs. http://www.bioperl.org/wiki/HOWTO:Graphics

ADD COMMENTlink modified 5.9 years ago • written 5.9 years ago by Vitis2.2k
0
gravatar for Alex Reynolds
5.9 years ago by
Alex Reynolds28k
Seattle, WA USA
Alex Reynolds28k wrote:

If you can convert your data matrix into GFF3-formatted elements, GenomeTools offers gt sketch that might help you out.

ADD COMMENTlink modified 5.9 years ago • written 5.9 years ago by Alex Reynolds28k
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