Genomics Visualization Python Packages

pycirclize

Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

pygenomeviz

A genome visualization python package for comparative genomics

trackhub

create, manage, and upload track hubs for use in the UCSC genome browser

jbrowse-jupyter

A python package for showing JBrowse views

segway

Segway is a tool for easy pattern discovery and identification in functional genomics data.

genovi

GenoVi, an automated customizable circular genome visualizer for bacteria and archaea

genomap

Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)

covviz

Multi-sample coverage browser

kitikiplot

KitikiPlot A Python library to visualize categorical sliding window data

tinycov

Command line tool to plot genomic coverage from a BAM file

gbkviz

Simple web application to visualize and compare genomes in Genbank files

exp-heatmap

Ordered-pair workflow for regional cross-population genomic visualization (VCF -> empirical rank-score heatmaps)

divbrowse

A web application for interactive visualization and analysis of genotypic variant matrices

gene2tab

Creates a table with the presence/absence of genes in samples

mgcplotter

Microbial Genome Circular plotting tool for comparative genomics using Circos

python-outbreak-info

Python package to access the genomics and epidemiology data and Research Library metadata compiled and standardized on outbreak.info

wigman

Generate heatmap plots from genomic BigWig data

exp-selection

Extended Cross-Population (ExP) Heatmap

omacase

an open-source (GPLv3) standalone Python package to analyze optical mapping data, with de novo repeat motif detection and analysis capabilities

python-outbreak-data

Python package to access the genomics and epidemiology data and Research Library metadata compiled and standardized on outbreak.info