Halo visualizes haplotype-resolved coverage data. It works for Strand-Seq single-cell data but also for any haplotype-resolved BAM file that uses the HP tag. Please use the halo command-line application to generate the required JSON input.
How to use halo
- Select a
.jsonor.json.gzhalo file in the Input tab. - Click Launch Analysis to load and render the plots.
- Switch to Results to explore by sample or chromosome, zoom, and sync charts.
- Use Show Example to load the bundled demo dataset if you don’t have a file handy.
Example dataset: HG00733.6-samples.json.gz
Visit the
halo
command-line application for usage instructions
on how to create the .json input file.