Analyze biological sequences and microbiome data from raw reads to comparative statistics.
npx skills add https://github.com/dralkh/seerai --skill scikit-bio-dralkh
Please help me install this Agent Skill. Skill: scikit-bio Source: https://github.com/dralkh/seerai/tree/main/skills/scikit-bio Command: npx skills add https://github.com/dralkh/seerai --skill scikit-bio-dralkh
Scikit-bio removes the friction of moving between sequence data, phylogenetic trees, diversity metrics, ordination, and statistical tests so researchers can analyze biological datasets in one workflow.
Use the scikit-bio skill to analyze a microbiome dataset by reading the table and tree, calculating diversity, and summarizing the results in plain language.
High-intent search queries and answers about installing and using this skill.
You can calculate alpha and beta diversity by reading a BIOM table and phylogenetic tree, then computing diversity metrics and ordination plots in one workflow. This process integrates tree-aware distance calculations like UniFrac.
To perform PERMANOVA and Mantel tests on biological distance matrices, you apply distance-based hypothesis testing directly to your ordination results. This validates whether sample groupings in your microbiome data are statistically significant.
The best way to parse and validate bioinformatics file formats like FASTA, FASTQ, and Newick is using validated biological file I/O operations. This ensures reproducible analysis by reading and writing sequence, alignment, and tree data accurately.
Yes, you can analyze DNA, RNA, and protein sequences including motif search, translation, and pairwise alignment in one workflow. This sequence and alignment analysis integrates directly with downstream phylogenetics and community ecology tasks.
To run ordination analysis such as PCoA on microbiome distance data, you compute distance metrics from your biological table and project them into lower dimensions. This yields ordination plots for visualizing sample relationships.
Yes, this approach supports building phylogenetic trees and computing UniFrac distances for community ecology. You can move from raw sequence data to tree building and then calculate taxonomy-aware distance metrics seamlessly.
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OwnLabAIAnalyze biological sequence, alignment, tree, and diversity data with a Python API.
CRAG666Compute distances, diversity metrics, and ordinations from biological sequences and trees.
ovachieverProvides Python-based bioinformatics tools for analyzing DNA, RNA, and protein sequences.
