Microbial diversity analysis toolkit
Project description
qdiv: Microbial Diversity Analysis Toolkit
qdiv is a Python toolkit for microbial diversity analysis, built around the robust and intuitive Hill number framework.
Features
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Data Management: Load and validate data from multiple formats (CSV/TSV, FASTA, Newick). Functions for subsetting, rarefaction, merging, renaming, tree pruning, and more.
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Diversity analysis: Compute multiple alpha and beta diversity metrics based on the Hill number framework.
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Statistical methods: Integrate diversity metrics using the Hill number framework into null models (Raup–Crick, NRI, NTI), ordinations (PCoA, db-RDA), PERMANOVA, and Mantel tests.
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Visualization: Heatmaps, ordinations, and diversity plots, and more.
Installation
pip install qdiv
Documentation
Full documentation is available at: https://qdiv.readthedocs.io
Licence
From version 4.0.0, qdiv is licensed under the https://opensource.org/licenses/BSD-3-Clause. Previous versions were released under the GNU General Public License v3.0 (GPL-3.0).
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