Question: No "local" option to view BAM files with IGV
0
gravatar for Chris
2.8 years ago by
Chris0
United Kingdom
Chris0 wrote:

Hi

I have BAM files loaded onto the main Galaxy server usegalaxy.org) and I want to visualize them in my local copy of IGV. However, there is currently no "web current" or "local" hyperlinks next to the IGV option, there is only a link with the name of the genome that the BAM is aligned to i.e "Zebrafish (Zv9/danRer7)". I have not had this problem in the past, but the BAM files have come from a different source this time. Does anyone know if this is a Galaxy error or a problem with my BAM files?

Thanks

Chris

 

igv galaxy bam • 767 views
ADD COMMENTlink modified 2.8 years ago by Daniel Blankenberg ♦♦ 1.7k • written 2.8 years ago by Chris0
1
gravatar for Daniel Blankenberg
2.8 years ago by
Daniel Blankenberg ♦♦ 1.7k
United States
Daniel Blankenberg ♦♦ 1.7k wrote:

Hi Chris,

We have restored the 'local' links for IGV display. The 'web current' link has been replaced with the Genome/Build Name as declared by IGV's available genome list, so the 'Zebrafish (Zv9/danRer7)' link is equivalent to the old 'web current'.

Please let us know if you encounter additional issues.

 

Thanks for using Galaxy,

Dan

ADD COMMENTlink written 2.8 years ago by Daniel Blankenberg ♦♦ 1.7k

Thanks Dan, that is great!

Chris

ADD REPLYlink written 2.8 years ago by Chris0
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