Fastsubtrees — Peer-reviewed • Rank 8.2 • Science 100%

Fastsubtrees: simple and efficient subtrees extractions in Python with applications to NCBI taxonomy - Published in JOSS (2022)

rrcf — Peer-reviewed • Rank 8.2 • Science 95%

rrcf: Implementation of the Robust Random Cut Forest algorithm for anomaly detection on streams - Published in JOSS (2019)

Mashtree — Peer-reviewed • Rank 6.6 • Science 93%

Mashtree: a rapid comparison of whole genome sequence files - Published in JOSS (2019)

taxonium-component • Rank 16.3 • Science 77%

A tool for exploring large trees in the browser

deepdiff • Rank 32.9 • Science 54%

DeepDiff: Deep Difference and search of any Python object/data. DeepHash: Hash of any object based on its contents. Delta: Use deltas to reconstruct objects by adding deltas together.

bactmap • Rank 6.2 • Science 77%

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

scitree • Rank 12.4 • Science 67%

Scitree is a recursive directory listing tool optimized for science

Quartet • Rank 11.8 • Science 59%

R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)

tcd • Rank 5.7 • Science 59%

Restor's ML pipeline for tree crown mapping in aerial images

treemap • Rank 8.8 • Science 54%

🍬 Pretty Treemaps

m5py • Rank 10.4 • Science 44%

An implementation of M5 and model trees in python, compliant with scikit-learn.

toytree • Rank 10.5 • Science 36%

A minimalist tree plotting library using toyplot graphs

treetime • Rank 11.4 • Science 26%

TreeTime is a data organisation, management and analysis tool. A tree is a hierarchical structure that arranges information in units and sub-units. TreeTime uses linked trees (one data item can be part of different distinct trees) to store and organise any general purpose data.

grapetree • Rank 12.0 • Science 23%

GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/GrapeTree/MSTree_holder.html

fgeo • Rank 11.7 • Science 23%

[Meta R-package on CRAN] Analyse forest diversity and dynamics

3d-forest • Rank 5.4 • Science 26%

Visualization, processing and analysis of Lidar point clouds, mainly focused on forest environment. New version of 3D Forest. Process files with terabytes of data. Edit new point attributes. Simple addition of new features by plugins.

https://github.com/biocore/gneiss • Rank 18.0 • Science 13%

compositional data analysis toolbox

chaid • Rank 15.6 • Science 13%

A python implementation of the common CHAID algorithm

https://github.com/4ment/cladokit • Science 26%

A minimal, no-frills C++17 library for phylogenetic trees

sysloss • Science 67%

Power tree analysis of circuits, boards and systems.

https://github.com/4ment/treezy • Science 26%

bubble • Science 44%

bubble is a new data structure based on the idea of fibonacci heaps

itrl-data-hub • Science 54%

The Idaho Tree Ring Lab Data Hub

https://github.com/constraintautomaton/rule-based-approach-for-source-selection-in-ltqp • Science 13%

A poster paper published to ISWC about using a boolean solver to do source selection in Link Traversal Queries