Example gallery¶

Each card opens the live chart and the Python code that produced it. The user guide teaches the grammar they use.

Association plots¶

Genome-wide association views such as Manhattan and QQ plots.

Manhattan plot Brush-linked genome tracks

Volcano and MA plots¶

Differential-effect views such as volcano and MA plots.

Volcano plot MA plot Volcano plot

Genome browser tracks¶

Shared-locus browser views with signal tracks or read-level detail.

Genome tracks with gene annotations Stacked genome browser tracks Sashimi plot BAM read alignments Dynseq binding-QTL tracks Composing a genome browser

Reference annotation tracks¶

Reference tracks such as cytobands, sequence, gene models, and annotations.

Chromosome ideogram GFF3 gene annotations RefSeq genes with scored labels BigBed cCRE track Indexed FASTA six-frame translation Indexed FASTA sequence track Multiple sequence alignment P53 multiple-sequence alignment with an overview brush

Mutation position plots¶

Mutation-position views such as lollipop, rainfall, and variant tracks.

Lollipop plot PIK3CA mutation lollipop plot Rainfall plot ClinVar variants track

Oncoprints and cohort summaries¶

Cohort-level alteration matrices and related summaries.

Oncoplot LAML oncoplot with clinical and pathway annotations LUAD oncoprint

Set intersections¶

Set-membership combinations and intersection-size summaries.

Set intersections with an UpSet plot

Copy-number plots¶

Genome-wide copy-number and allele-specific signal views.

Copy-number profile ASCAT copy-number segmentation Interactive ASCAT purity/ploidy fitting HCC1954 structural variants and copy number TCGA ovarian cancer GISTIC landscape

Basics¶

Core chart types and grammar building blocks.

Point mark Rect heatmap Ranged rule mark Link mark Sequence logo Vertical concatenation Scrollable viewport