Question: Comparing two datasets with a custom genome
0
gravatar for lhorb
2.9 years ago by
lhorb0
United States
lhorb0 wrote:

I have an ran seq experiment -paired end, 100 bp, where I am trying to compare control vs test samples.  I am using a Xenopus Laevis genome (Xenbase v9.1)  which I uploaded via FTP.   I uploaded the data sets, trimmed them and then aligned them with TOPHAT tool to my 'custom genome from history'.

When I took the course, at this point we looked at the data but we were using a human genome that was available and there was a link in the TOPHAT accepted hits to USCU main.  My genome is not there so there is no such link and now I'm lost.    I would just like to compare the data sets to see if there is anything in the test which is not in the control.  Thank you

 

 

 

 

rna-seq ucsc customgenome • 788 views
ADD COMMENTlink modified 2.8 years ago by Jennifer Hillman Jackson25k • written 2.9 years ago by lhorb0
0
gravatar for Jennifer Hillman Jackson
2.9 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Create a Custom Build and use Trackster within Galaxy for visualization. 

https://wiki.galaxyproject.org/Learn/CustomGenomes#Custom_Builds
https://wiki.galaxyproject.org/Learn/Visualization#Custom_Builds

Thanks! Jen, Galaxy team

 

ADD COMMENTlink written 2.9 years ago by Jennifer Hillman Jackson25k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 114 users visited in the last hour