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

lorax

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

asymmetree

Simulation of phylogenetic trees, sequences and genomes

bionick

Tools for newick file manipulation and visualization.

automlsa2

Automated Multi-Locus Sequence Analysis tool

ab12phylo

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

sc-supertree

A supertree method for rooted source trees

pear-ebi

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

cafeplotter

A tool for plotting CAFE5 gene family expansion/contraction result

taxopedia

Taxonomic trees (cladograms) from Wikipedia-scraped data.

phytreeviz

Simple phylogenetic tree visualization python package for phylogenetic analysis

mycolab

Suite of mycology applications and tools for automating common lab workflows.

graphlan

High-quality circular representations of taxonomic and phylogenetic trees

phyloki

🌳Tool to fetch seqs metadata from NCBI to annotate phylogenetic trees

jplaceparser

A python parser for jplace (evolutionary placement) files