Tracks
Load tracks by drag-and-drop, the --track option, or the load track command. Tracks appear below the alignments.
| Data option | File formats supported |
|---|---|
--track | VCF, BCF, BED, GFF3, GTF, BIGBED, BIGWIG, GW_TRACK |
gw hg19 -r chr1 -b HG002.bwa.bam --track test.gff3.gz
Resize the track pane by dragging its boundary, with track-height / tab-track-height, or via Settings → Tracks.
By default, dragging a VCF/BCF file loads it as image tiles (like --var). To add variants as a track instead, set vcf_as_tracks in Settings → Interaction.
expand-tracks (view menu or command) displays overlapping features in separate rows.
docs/assets/images/v2/tracks.png Ideograms
Many reference genomes come with a preset ideogram for matching genome-tags (e.g. hg19, hg38, t2t). Manage them manually:
load ideogram hg19
remove ideogram
Set a custom ideogram for a genome-tag in the [tracks] section of .gw.ini:
[tracks]
hg38_ideogram=path_to_ideogram.bed
Any BED file works as an ideogram; multiple ideograms stack. Colour records with #gw header lines (ARGB):
#gw LTR5 255,255,0,0
chr1 10000 20000