Synteny Python Packages

pygenomeviz

A genome visualization python package for comparative genomics

jcvi

Python library to facilitate genome assembly, annotation, and comparative genomics

pynteny

Query sequence database by HMMs arranged in predefined synteny structure

akrup

Ancestral Karyotype Reconstruction Universal Pipeline

hoodini-colab

Google Colab notebook for running Hoodini gene neighborhood analysis with a nice GUI

synphage

Pipeline to create phage genome synteny graphics from genbank files

daisyblast

A Python tool to find, plot, and export synteny blocks from all-vs-all BLAST.

phyca

Universal ortholog based Phylogenomic toolkit.

pyscaf

Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.

superrec2

Run and compare algorithms for phylogenetic reconciliation and super-reconciliation