Genomics Visualization Python Packages

pygenomeviz

A genome visualization python package for comparative genomics

pycirclize

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

trackhub

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

kitikiplot

KitikiPlot A Python library to visualize categorical sliding window data

jbrowse-jupyter

A python package for showing JBrowse views

genomap

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

genovi

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

segway

Application for semi-automated genomic annotation.

divbrowse

A web application for interactive visualization and exploratory data analysis of variant call matrices

covviz

Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata

gbkviz

Easy-to-use web application for visualization and comparison of genomes in Genbank file

exp-heatmap

Extended Cross-Population (ExP) Heatmap

tinycov

Command line tool to plot genomic coverage from a BAM file

locus-snap

Create BAM snapshots

gene2tab

This script is used to convert the output of ABRICATE tabulated output into a matrix samples with the genes as columns and the presence/absence of the gene as the values.

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

omacase

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

exp-selection

Extended Cross-Population (ExP) Heatmap