Track Catalog

This page summarizes major track families and points to runnable scripts.

Structural tracks

  • scalebar (ScaleBar): genomic distance bar.
  • axis (GenomicAxis): coordinate ticks and labels.
  • spacer (Spacer): layout spacing.

Signal tracks

  • bigwig (BigWigTrack): continuous/interval signal (style: fill, fragment, scatter, std).
  • overlay (OverlayTrack): multi-signal overlay panel.
  • bigwig_overlay (BigwigOverlay): compatibility alias for overlay.
  • bigwig_collection (BigWigCollection): multi-BigWig collection workflows.
  • bigwig_diff (BigWigDiff): subtraction/ratio/log2ratio between two tracks.

Scripts:

  • examples/tracks/01_bigwig_styles.py
  • examples/recipes/01_autoscale_overlay_highlight.py

Interval and annotation tracks

  • bed (BedTrack): interval rectangles with optional labels.
  • narrowpeak (NarrowPeakTrack): peak intervals with summit/score support.
  • genes (Genes): gene models from bundled or custom annotations.
  • links (LinksTrack): arcs for BEDPE-style interactions.
  • highlight (HighlightsFromFile): region overlays.
  • hline / vline: reference lines.

Scripts:

  • examples/tracks/02_bed_and_narrowpeak.py
  • examples/tracks/03_links_annotations.py

Matrix tracks

  • cooler (CoolerTrack)
  • capcruncher (CapcruncherTrack)
  • cooler_average (CoolerAverage)

These require cooler-compatible files.

QuantNado tracks

  • quantnado_coverage
  • quantnado_stranded_coverage
  • quantnado_methylation
  • quantnado_variant

These support object-backed and array-backed workflows.

Field-level options

Coverage snapshot

Track / alias Coverage Primary example(s)
scalebar, axis, genes Runnable script examples/quickstart/01_first_plot.py, examples/recipes/03_gene_label_strategies.py
bigwig Runnable script examples/tracks/01_bigwig_styles.py, examples/basic_figure.py
bed, narrowpeak Runnable script examples/tracks/02_bed_and_narrowpeak.py
links, hline, vline Runnable script examples/tracks/03_links_annotations.py
highlight, overlay Runnable script examples/recipes/01_autoscale_overlay_highlight.py
bigwig_collection, bigwig_diff Documented pattern docs/recipes.md
cooler, capcruncher, cooler_average Documented pattern docs/track_catalog.md
QuantNado aliases Documented pattern docs/quickstart_tracks.md