Genome data visualization

Question

[polag01]

Hi, Please I need help with producing visualization for genomic DNA regions such as seen in these figures I obtained from a publication:

The other image also shows the regions of a chromosome by color.

I just need information on the right tools (not IGV) that could make these visualizations.

Thank you.

[seidel]

What's the publication? What kind of data do you have? What format is it in? What are you familiar with (R, Python, anything else)?

[polag01]

So sorry I am just getting back to this, I am only seeing it because I wanted to make another post. Thank you for your response. I am not sure of the publication again, but the data is the repeat content of a chromosome rendered from a bed file. The essence of getting a genomic tool is to account for the size of the genome relative to another, as well as the exact locus of the feature.

Answer 1

[SushiRoll]

Hey polag,

It's not really clear to me what is that you need but I would suggest Artemis, it is a nice tool for genomic visualisation, it takes .fasta, .gbk, .gff3 and so. If you want you can color code different features.

[polag01]

So sorry I am just getting back to this, I am only seeing it because I wanted to make another post. Thank you for your response. I will check this tool out.