upgma

Demonstration of the UPGMA hierarchal clustering algorithm in Pandas, Seaborn, and Scipy

Efficient UPGMA implementation

UPGMA hierarchical clustering algorithm constructing rooted ultrametric phylogenetic trees from pairwise evolutionary genetic distance matrices.

UPGMA hierarchical clustering algorithm constructing rooted ultrametric phylogenetic trees from pairwise evolutionary genetic distance matrices.

Phylogenetic Insights from Turtles, Lizards, Crocodiles and Birds Sequences. Jupyter Notebook with tree construction

Phylogenetic tree manipulating with Python

UPGMA Algorithm in C++

🍀 bioseq - a Python package to handle biological sequences and perform common Bioinformatics operations.

An end-to-end scRNA-seq analysis pipeline processing raw PBMC data through QC, dimensionality reduction, and clustering, deployed as an interactive, production-ready R Shiny dashboard.

Project for the master course: Introduction to bioinformatics

从一段 DNA，长出一棵树。浏览器内系统发生树工作室 — FASTA → 距离矩阵 → NJ/UPGMA → 可探索的进化树

C++ tool for constructing phylogenetic trees from DNA sequences using NJ, UPGMA, Fitch-Margoliash and Minimum Evolution algorithms

UPGMA clustering of constructing phylogenetic relationships implemented from scratch

A simple PHP library to build phylogenic trees from distance matrix

From-scratch molecular-phylogenetics algorithms in R — pairwise alignment, TN93 evolution simulation, UPGMA, Felsenstein likelihood, and independent contrasts, each with passing RUnit tests.

[Python] Construction of SARS-CoV-2 Phylogenetic Tree.

A Python toolkit for simulating sequence evolution and exploring molecular clock algorithms

A complete SSR population genetics toolkit for any species. Includes data cleaning, UPGMA clustering, PCoA, STRUCTURE formatting, STRUCTURE barplot visualization, and supporting scripts for reproducible microsatellite population analyses.

Repository for Computational Biology course at ETH Zürich

Python · pairwise alignment · dN/dS · UPGMA phylogeny — Genomic surveillance for Cotton Leaf Curl Virus on real NCBI GenBank sequences: which variant is rising and is that real, is anything selecting for it, and how are strains related. Collapsing clonal duplicates turned 9 'emerging variants' into 0. 101 tests, zero dependencies.