Phylogenetic Trees Python Packages

cogent3

Comparative Genomics Toolkit 3

pycirclize

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

itolapi

Python API for the Interactive Tree of Life (iTOL)

phylophlan

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes

python-circos

python Circos

pear-ebi

Calculates distances of trees in large collections. Embeds distances and plot the embeddings with dynamic interfaces.

asymmetree

Simulator for species and gene trees with asymmetric evolution rates

lorax

a web server that "speaks for the (phylogenetic) trees"

bionick

Software for manipulating Newick strings and adding phylogenies to Matplotlib visuals.

automlsa2

Automated Multi-Locus Sequence Analysis phylogenetic tree construction software

ab12phylo

Integrated pipeline for ML phylogenetic inference from ABI trace and FASTA data

sc-supertree

A supertree method for rooted source trees

cafeplotter

A tool for plotting CAFE5 gene family expansion/contraction result

taxopedia

Taxonomic trees (cladograms) from Wikipedia-scraped data.

mycolab

Command line tools for MycoLab

phytreeviz

Simple phylogenetic tree visualization python package for phylogenetic analysis

phyloki

Annotate phylogenetic trees like never before

graphlan

High-quality circular representations of taxonomic and phylogenetic trees

jplaceparser

A python parser for jplace (evolutionary placement) files