microbiome-ecology-analysis

Guides Python-based analysis of biological sequences and ecological community data with the scikit-bio library, covering typed DNA, RNA and protein sequence objects, alpha and beta diversity metrics such as Shannon, Simpson, Bray-Curtis and UniFrac, distance matrices, PCoA ordination, phylogenetic trees and PERMANOVA group testing. Use when the user has sample-by-taxon abundance tables, FASTA or FASTQ sequence data, Newick trees, or asks for diversity scores, ordination coordinates or a statistical comparison of communities across sample groups. Not for general machine learning, genome assembly or taxonomic classification of raw sequencing reads.

Version

v1.0.0

Size

14 KB

Updated

2026-10-06

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