Performs bioinformatics analyses including pathway enrichment, gene ontology analysis, protein-protein interaction networks, multi-omics integration, and biological sequence database querying; trigger when users discuss gene sets, biological pathways, functional annotation, or omics data integration.
STAR alignment skill for splice-aware RNA-seq read mapping with comprehensive QC metrics
Qdrant vector database with filtering, payloads, and quantization support
Seurat single-cell analysis skill for clustering, annotation, and trajectory analysis
Phylogenetic analysis skill for constructing evolutionary trees and assessing relationships
Pinecone vector database setup, configuration, and operations for RAG applications
PharmGKB pharmacogenomics annotation skill for drug-gene interaction assessment
MetaPhlAn metagenomic profiling skill for species-level community composition
LangChain chain composition including SequentialChain, RouterChain, and LCEL patterns
MEGAHIT metagenomic assembly skill for reconstructing genomes from short reads
Kraken2 taxonomic classification skill for rapid metagenomic read assignment
SONA self-optimizing neural architecture with ReasoningBank trajectory learning, EWC++ anti-forgetting, and reinforcement learning feedback loops.
Gene Set Enrichment Analysis skill for functional annotation and pathway interpretation
Generate structured logging schemas with correlation ID patterns and ELK/Splunk integration
Sequencing quality control skill for assessing read quality, adapter contamination, and sequence composition
Deep integration with Ghidra and IDA Pro for binary analysis and reverse engineering
Cell Ranger skill for 10X Genomics single-cell data processing
Expertise in RTL optimization for FPGA synthesis tools. Analyzes synthesis reports, applies attributes, and guides resource inference for optimal QoR.
BWA-MEM2 alignment skill for mapping sequencing reads to reference genomes with optimized parameter selection
Transcribe speech using International Phonetic Alphabet and analyze sound systems including phonotactics and phonological rules
ClinVar database query skill for clinical variant interpretation and pathogenicity lookup
Code qualitative field data, identify emergent themes, and develop grounded interpretations using NVivo/Atlas.ti methodologies
