High-quality genome assembly from PacBio HiFi reads using hifiasm with phasing support. Use when building reference-quality diploid assemblies from HiFi data, especially with trio or Hi-C phasing for fully resolved haplotypes.
Calculate read depth and coverage across genomic intervals using bedtools genomecov and coverage. Generate bedGraph files, compute per-base depth, and summarize coverage statistics. Use when assessing sequencing depth, creating coverage tracks, or evaluating target capture efficiency.
Access 1000+ scientific tools through ToolUniverse for drug discovery, protein analysis, genomics, literature search, clinical data, ADMET prediction, molecular docking, and more. Use when the user needs biomedical or scientific research capabilities.
Strategies for scientific computing, numerical methods, bioinformatics/DNA tasks, logic circuit design, algorithmic challenges, and ML training tasks.
This skill should be used when the user asks for "deep research", "research team", "comprehensive analysis", "research report", "investigate thoroughly", "compare X vs Y in depth", or needs synthesis across multiple sources with verification. It spawns a coordinated team of researcher agents across multiple rounds, with the lead triaging findings and creating targeted follow-up tasks. Scales from Focused (2 researchers, 1-2 rounds) to Comprehensive (4 researchers, 3-4 rounds with cross-verification). Do NOT use for simple lookups, debugging, or questions answerable with 1-2 searches.
Problem-solving strategies for hilbert spaces in functional analysis
Computational geometry with Shapely - create geometries, boolean operations, measurements, predicates
Problem-solving strategies for root finding in numerical methods
Problem-solving strategies for convergence in real analysis
Problem-solving strategies for numerical integration in numerical methods
Otonom deney dongusu. Kod degisikligi yap, olc, karsilastir, kabul et veya geri al. Metrik bazli karar verme ile performans, boyut veya kalite optimizasyonu. Tek basina veya agent ile kullan.
Problem-solving strategies for integration theory in measure theory
Unit-aware computation with Pint - convert units, dimensional analysis, unit arithmetic
Problem-solving with Rudin's Real and Complex Analysis textbook
Problem-solving strategies for contour integrals in complex analysis
Problem-solving strategies for lebesgue measure in measure theory
Autonomous experiment loop: hypothesize > modify > test > evaluate > keep/discard > repeat. Run N experiments automatically with measurable metrics. Works for performance optimization, A/B testing, prompt engineering, and any measurable improvement task.
Problem-solving strategies for interpolation in numerical methods
Conducts enterprise-grade research with multi-source synthesis, citation tracking, and verification. Produces citation-backed reports through a structured pipeline with source credibility scoring. Triggers on "deep research", "comprehensive analysis", "research report", "compare X vs Y", "analyze trends", or "state of the art". Not for simple lookups, debugging, or questions answerable with 1-2 searches.
Guide for implementing physics in IWSDK projects. Use when adding physics simulation, configuring rigid bodies, collision shapes, applying forces, creating grabbable physics objects, or troubleshooting physics behavior.
