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Question: Need to Expand Visualization
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gravatar for Brenna
3.5 years ago by
Brenna • 0
United States
Brenna • 0 wrote:

Hello, 

I recently used tophat2 to align two reads to the rn4 genome. I went through trackster and added my tracks to try and visualize the results, but when the screen loads the map of the reads is only at the very very top and it can not be seen. Is there anyway to expand this section as to see the results? 
rna-seq visualization trouble shooting • 904 views
ADD COMMENT • link •
modified 3.5 years ago by Jennifer Hillman Jackson ♦ 25k • written 3.5 years ago by Brenna • 0
0
gravatar for Jennifer Hillman Jackson
3.5 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Hover over the track near the name and icons to configure display will appear, including those that will expand datasets and zoom in/out.

This graphic shows where: http://i.imgur.com/n7WSfOg.png

There have been many upgrades since this publication from 2012, but is a good place to start to learn more about Trackster. One can also just experiment with the functions. The particular visualization tool has some advanced functions, but general viz is straightforward. You will find most are somewhat similar to other browser tools, with a few extra nice add-ons, such as being able to group tracks into "composites" by simply dragging them in the UI. Plus all the Galaxy sharing options apply. The wiki link has more snippets of info. Start in "Learn" and have a look around.

Hope this works out for you, but if are still stuck, please let us know and we can get into the details more. Jen, Galaxy
ADD COMMENT • link modified 3.5 years ago • written 3.5 years ago by Jennifer Hillman Jackson ♦ 25k

Hello,

 

I have gone in and tried each of the different display settings as you suggest, but it still stays all squished up at the top. I will look through the publication and hopefully find some more help. Thank you so much for you advice!

ADD REPLY • link written 3.5 years ago by Brenna • 0

Perhaps try zooming in a little? What file type is your track? Jen

ADD REPLY • link written 3.5 years ago by Jennifer Hillman Jackson ♦ 25k

I think I figured it out. It likes the BAM files! Thank you so much for your help today!

 

ADD REPLY • link written 3.5 years ago by Brenna • 0

Great, very glad to know this is now working. Thank you for the followup! Jen

ADD REPLY • link modified 3.5 years ago • written 3.5 years ago by Jennifer Hillman Jackson ♦ 25k
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