Analyze biological sequences, phylogenies, and diversity metrics in Python.
npx skills add https://github.com/Hung-3008/agusta --skill scikit-bio-hung-3008
Please help me install this Agent Skill. Skill: scikit-bio Source: https://github.com/Hung-3008/agusta/tree/main/.agents/skills/scikit-bio Command: npx skills add https://github.com/Hung-3008/agusta --skill scikit-bio-hung-3008
scikit-bio provides a comprehensive Python library for working with biological data. It enables researchers to manipulate sequences, construct and analyze phylogenetic trees, perform diversity and ordination analyses, and integrate with data ecosystems such as pandas.
Analyze a BIOM table to compute alpha and beta diversity and generate an ordination plot.
High-intent search queries and answers about installing and using this skill.
To perform microbiome diversity analysis from a BIOM table, calculate alpha and beta diversity metrics, including UniFrac, and use ordination analyses like PCoA to visualize sample relationships.
Yes, you can read and write common sequence formats like FASTA, FASTQ, GenBank, Newick, and BIOM directly in Python, enabling seamless biological sequence manipulation and processing within your data pipelines.
For phylogenetic and ordination analysis, you can perform statistical tests including PERMANOVA, ANOSIM, and Mantel tests to evaluate ecological patterns and significance across biological data samples.
Yes, scikit-bio integrates with pandas, allowing you to structure biological data and diversity metrics into DataFrames for downstream machine learning workflows and advanced ecological data analysis.
To construct and visualize phylogenetic trees from sequence data, build trees using distance metrics, generate ASCII visualizations, and save the outputs using the Newick format for downstream analysis.
ya-wayRead, manipulate, and analyze biological sequences in FASTA, FASTQ, and GenBank formats.
JonathanMitchell1234Perform data cleaning, feature engineering, and statistical modeling with pandas and scikit-learn.
JosephWoodallAnalyze biological sequences, phylogenetics, and diversity with Python.
tassiovaleManipulate biological sequences, alignments, trees, and diversity metrics in Python.
