Custom text for each ideogram label?

[Azam Mohsin]

Is there way to change text for each ideogram label?

I tried to use the label_format parameter change to id1 to 'Name1' and id2 to 'Name2' like this:

label_format = eval( replace(var(chr),"id1","Name1");   replace(var(chr),"id2","Name2");)

But this only changes it for id2 and not id1. How can I have replace statements in the eval for label_format?  or is there any other way to specify the text for each ideogram label?

Thanks

[sol.do...@gmail.com]

Hi Azam, 

I am not sure if I understood your question correctly, but normally you define the labels in the 4th column of the karyotype file:

chr - ID LABEL START END COLOR 

So in your case you can write something like this:

chr - id1 Name1 0 1000 black

see http://circos.ca/documentation/tutorials/ideograms/karyotypes/ for more info

Hope it helps,

Marisol

[Azam Mohsin]

Hi Marisol,

Thanks for your response. The issue is that my original labels have  many white spaces and dashes. When I tried to use these labels in the karyotype file and then in the links.txt file, I would always get an error because of the dashes. I renamed all my labels to id1, id2, id3, id4, ... etc. But on the plot, I want  replace id1, id2, ... with  the original label names.

Thanks,

Azam

[Dirk Krienbühl]

Hi Azam,

have you solved that ideogram labelling problem yet?

Unfortunately I came across the same issue as you have (... and additionally I want to be also able to have emojis in the label) at the moment I solved it using a name with and incrementing number.

Many thanks in advance for your reply.

:-) Dirk

[Dirk Krienbühl]

FYI, I solved it by editing the generated SVG file after circos has generated it, using as dictionary with the original labels and the new labels,  a small python script will read the SVG line by line and replace the original labels with the new ones found in the dictionary, now I can use any character I want even emoji's :-)