#
iqtree
Here are 5 public repositories matching this topic...
This repository provides a comprehensive tutorial for phylogenetic analysis, covering data collection, sequence alignment, tree construction, and interpretation. It runs on AWS SageMaker using Jupyter notebooks and includes tools like MAFFT, Nextclade, and IQ-TREE.
python bioinformatics gcp computational-biology phylogenetic-trees phylogenetics population-genetics high-throughput-sequencing genome-assembly r-programming radseq ipyrad ddrad-seq iqtree phylogenetic-inference
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Jun 6, 2025 - Jupyter Notebook
Complete pipeline that mirrors the manuscript: reference based assembly with depth masking, de novo checks, phylogeny with configurable models including ModelFinder, and targeted mutation analysis for G and F versus NC_038235.1 and NC_001781.1. Includes CI and environment files for easy setup.
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Sep 30, 2025 - Python
A Nextflow pipeline to generate a phylogenetic tree from SKA alignment
workflow nextflow alignment ska phylogeny fastme phylogenetic-tree nextflow-pipeline reference-free fasttree iqtree raxml-ng split-kmer rapidnj
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Dec 19, 2024 - Nextflow
This repository contains some phylogenetic trees I have done for practical purposes.
bioinformatics evolution phylogenetics tracer molecular-biology phylogeny mrbayes evolutionary-biology iqtree raxml-ng partitionfinder2
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Apr 22, 2025
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