Question: Circular Genome Visualisation For Hg19?
0
gravatar for Coryza
5.4 years ago by
Coryza30
Coryza30 wrote:

Hi,

I was wondering if anyone knows a good Circular Genome Viewer? That is able to visualise the HG19 genome, and the coverage of that HG19 genome. It would be easy if the coverage could be read from a .sam/.bam/.bed mapped data file, or when it's easy to convert sam/bam/bed to the wanted file format.

Anyone got some ideas? Thanks!

genome hg19 plot • 2.0k views
ADD COMMENTlink written 5.4 years ago by Coryza30
2

circos is the best option but you need to go through its numerous options. bed format would do

ADD REPLYlink written 5.4 years ago by ancient_learner610
2

I don't usually say this, but have you tried searching? If you type your question into the search bar above your question you will get pages of similar questions that have useful responses.

ADD REPLYlink written 5.4 years ago by SES8.2k

I actually did. But I stumbled on a lot of Circular Viewers, but those were all to hard to use in combination with the input files I have. So I thought lets ask it here...

ADD REPLYlink written 5.4 years ago by Coryza30
1

Did you read Circos:- How To Make Circos Histogram Image Using This Data? I think trying to plot data from bed is pretty common. When you say others are "hard to use" are you looking for a desktop GUI application?

ADD REPLYlink written 5.4 years ago by SES8.2k

I find Circos pretty difficult to use. I can't even seem to install it correctly.

ADD REPLYlink modified 5.4 years ago • written 5.4 years ago by Coryza30

what is your OS and its version? It would be easy if you try to install it in recent versions of ubuntu or any other linux flavours

ADD REPLYlink written 5.4 years ago by ancient_learner610
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