Extract marker genes, generate alignments, and infer phylogenetic trees.
npx skills add https://github.com/fmschulz/omics-skills --skill bio-phylogenomics
Please help me install this Agent Skill. Skill: bio-phylogenomics Source: https://github.com/fmschulz/omics-skills/tree/main/skills/bio-phylogenomics Command: npx skills add https://github.com/fmschulz/omics-skills --skill bio-phylogenomics
Marker gene phylogenomics workflows are laborious and prone to inconsistency; this skill provides a reproducible framework to extract marker genes, align them, and infer robust phylogenetic trees.
Provide your marker gene set and run the workflow to produce alignments and phylogenetic trees.
High-intent search queries and answers about installing and using this skill.
Automate marker gene alignments and phylogenetic tree inference by providing your input genomes to extract sequences, generate standardized alignments, and infer publication-ready phylogenies with validated bootstrap support.
Yes, you can build cross-taxon phylogenies from marker genes for bacteria, archaea, and eukaryotes. The workflow handles single-marker and multi-marker datasets across diverse taxa to infer species relationships.
Ensure reproducible phylogenomic workflows by using standardized frameworks that enforce input validation, model selection, bootstrap support assessment, and robust post-processing to maintain traceable provenance across your phylogenetic trees.
Yes, the phylogenomics workflow uses IQ-TREE and ete-toolkit for tree inference and robust post-processing, applying validated methods with bootstrap support to generate publication-ready phylogenies.
Generate publication-ready phylogenetic trees from input genomes by extracting marker gene sequences, aligning and trimming them, and applying quality gates with model selection and bootstrap support assessment.
You need quality gates and model selection in phylogenomic tree inference when building robust cross-taxon phylogenies from marker genes, ensuring traceable provenance and publication-ready results with validated bootstrap support.
sanand0Analyze single-cell RNA-seq data with scanpy for QC, clustering, and annotation.
hxk622Analyze and manipulate phylogenetic trees in Newick and NHX formats.
ammawlaProcess WGBS FASTQ files into ENCODE-compliant methylation calls.
jetmobsolSelect ML/CV models and design training and inference pipelines.
