Scientific Software
Updated 11 months ago

helayo — Peer-reviewed • Rank 4.2 • Science 95%

helayo: Reconstructing Sanskrit texts from manuscript witnesses - Published in JOSS (2022)

Artificial Intelligence and Machine Learning
Scientific Software · Peer-reviewed
Scientific Software
Updated 11 months ago

Phylen — Peer-reviewed • Rank 2.2 • Science 95%

Phylen: automatic phylogenetic reconstruction using the EggNOG database - Published in JOSS (2018)

Scientific Software · Peer-reviewed
Scientific Software
Updated 11 months ago

ALPPACA - A tooL for Prokaryotic Phylogeny And Clustering Analysis — Peer-reviewed • Rank 3.6 • Science 93%

ALPPACA - A tooL for Prokaryotic Phylogeny And Clustering Analysis - Published in JOSS (2022)

Scientific Software · Peer-reviewed
Updated 11 months ago

taxonium-component • Rank 16.3 • Science 77%

A tool for exploring large trees in the browser

Updated 11 months ago

bactmap • Rank 6.2 • Science 77%

A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences

Updated 11 months ago

sumt • Rank 6.1 • Science 77%

Computes consensus trees and other phylogenetic tree summaries

Updated 11 months ago

phylotreelib • Rank 8.7 • Science 64%

Library for analyzing and manipulating phylogenetic trees

Updated 11 months ago

fishtree • Rank 9.9 • Science 49%

The R interface to the Fish Tree of Life

Updated 11 months ago

https://github.com/biocore/empress • Rank 13.2 • Science 36%

A fast and scalable phylogenetic tree viewer for microbiome data analysis

Updated 11 months ago

toytree • Rank 10.5 • Science 36%

A minimalist tree plotting library using toyplot graphs

Updated 11 months ago

ipyrad • Rank 9.4 • Science 36%

Interactive assembly and analysis of RAD-seq data sets

Updated 11 months ago

piranha • Rank 3.0 • Science 41%

Scripts for file processing and analysis in phylogenetics and phylogeography

Updated 11 months ago

rotl • Rank 18.9 • Science 23%

Interface to Open Tree of Life API

Updated 11 months ago

RBIEN • Rank 5.9 • Science 36%

Tools for accessing the Botanical Information and Ecology Network (BIEN) database

Updated 11 months ago

homoplasyfinder • Rank 3.2 • Science 31%

A tool to identify and annotate homoplasies on a phylogeny and sequence alignment

Updated 11 months ago

https://github.com/agormp/treedist • Rank 2.8 • Science 10%

Computes measures of (dis)similarity between phylogenetic trees. Provides summaries of shared and unique bipartitions.

Updated 11 months ago

tnt_script • Science 57%

One-step TNT script for maximum parsimony phylogenetic analysis

Updated 11 months ago

reportho • Science 57%

nf-core pipeline for comparative analysis of ortholog predictions

Updated 11 months ago

https://github.com/banhbio/metaphylo.jl • Science 20%

Phylogenetic trees with metadata by Julia based on Graphs.jl and AbstractTrees.jl.

Updated 11 months ago

hcompnet • Science 36%

Code repository for HComP-Net (ICLR'25)