phylogenetic-trees
There are 183 repositories under phylogenetic-trees topic.
YuLab-SMU/ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
moshi4/pyCirclize
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
ponnhide/pyCircos
python Circos
veg/phylotree.js
Interactive viewer of phylogenetic trees
biobakery/phylophlan
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
cogent3/cogent3
Comparative Genomics Toolkit 3
YuLab-SMU/treeio
:seedling: Base Classes and Functions for Phylogenetic Tree Input and Output
biobakery/graphlan
High-quality circular representations of taxonomic and phylogenetic trees
CDCgov/MicrobeTrace
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
shawnlaffan/biodiverse
A tool for the spatial analysis of diversity
caravagnalab/revolver
REVOLVER - Repeated Evolution in Cancer
LKremer/CAFE_fig
A tool to extract and visualize the results of CAFE (Computational Analysis of gene Family Evolution)
lczech/genesis
A library for working with phylogenetic and population genetic data.
vibbits/phyd3
Phylogenetic tree viewer based on D3.js
vinuesa/get_phylomarkers
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
agmcfarland/r_phylogenetics_worshop
Using ggtree to build phylogenetic trees
moshi4/phyTreeViz
Simple phylogenetic tree visualization python package for phylogenetic analysis
cmzmasek/archaeopteryx-js
Archaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.
cmzmasek/forester
forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research
albertyw/itolapi
Python API for the Interactive Tree of Life (iTOL)
daijiang/rtrees
rtrees: an R package to assemble phylogenetic trees from mega-trees
JTFouquier/ghost-tree
creating hybrid-gene phylogenetic trees for diversity analyses
LKremer/showTree
showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.
ms609/TreeDist
Calculate distances between phylogenetic trees in R
mooreryan/iroki
Super snazzy online phylogenetic tree viewer with automatic customization using simple, tab-separated text files.
moshi4/CafePlotter
A tool for plotting CAFE5 gene family expansion/contraction result
davidemms/SHOOT
SHOOT.bio - the phylogenetic search engine
jangevaare/PhyloTrees.jl
Phylogenetic trees in Julia
ms609/TreeTools
Create, modify and analyse phylogenetic trees in R
ncbi/tree-tool
Incremental building of phylogenetic distance trees
PlantDr430/BuscoOrthoPhylo
Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs
ramithuh/diff-evol-tree-search
We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original representation itself, thus requiring no prior training data.
simonpenel/thirdkind
Drawing reconciled phylogenetic trees allowing 1, 2 or 3 reconcillation levels
Picani/fastax
Make phylogenetic trees and lineages from the NCBI Taxonomy database
ms609/Quartet
R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)
AABoyles/MicrobeTrace
The Visualization Multitool for Molecular Epidemiology and Bioinformatics