Genome Browser for Visualizing Coverage Data, Custom Annotations, and Genome Sequence?

Question

[vanbelj]

I am looking for a genome browser that can do the following:

1. Visualize coverage data, ideally by importing a bigwig file or similar
2. Add a set of custom annotations to the genome by importing a bed file or similar
3. Display the genome sequence with the track. Ideally be able to search the genome for a given sequence

I’m visualizing transcription factor ChIP-seq data and have identified peak locations computationally. I used the peaks to identify a sequence motif. Now I want to visualize how the coverage data is oriented around the sequence motif while including the computationally-derived peak location as an annotation.

Does anyone know of any tools that can do this well? Most genome browsers I find can do two of the three things or make it hard to identify the motif within the genome sequence.

Thank you!

[Louisse_Ensembl]

Hi! You can do this on the Ensembl browser. You can find information on how to add custom data in this documentation page.

Answer 1

[Pierre Lindenbaum]

Have a look at the ucsc "hub" documentation. https://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html