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Analyze restriction digest fragments using Biopython Bio.Restriction. Predict fragment sizes, get fragment sequences, simulate gel electrophoresis patterns, and perform double digests.
Track bacterial strains using MASH, sourmash, fastANI, and inStrain. Compare genomes, detect contamination, and monitor strain-level variation. Use when needing sub-species resolution for outbreak tracking, tra...
Differential binding analysis using DiffBind. Compare ChIP-seq peaks between conditions with statistical rigor. Requires replicate samples. Outputs differentially bound regions with fold changes and p-values.
End-to-end proteomics workflow from MaxQuant output to differential protein abundance. Orchestrates data import, normalization, imputation, and statistical testing with MSstats or limma.
Navigate protein structure hierarchy using Biopython Bio.PDB SMCRA model. Use for accessing models, chains, residues, and atoms, iterating over structure levels, extracting sequences, identifying residue types,...
Create genome browser-style visualizations showing multiple data tracks (coverage, peaks, genes) using pyGenomeTracks, Gviz, and IGV. Use when visualizing genomic data at specific loci with multiple aligned tra...
Visualize ChIP-seq data using deepTools, Gviz, and ChIPseeker. Create heatmaps, profile plots, and genome browser tracks. Visualize signal around peaks, TSS, or custom regions.
Align RNA-seq reads with STAR (Spliced Transcripts Alignment to a Reference). Use for RNA-seq data requiring splice-aware alignment. Supports two-pass mode for novel splice junction discovery.
Guidelines for implementing audio feedback in web interfaces. Use when adding sound to interactions, reviewing audio UX, or designing notification systems. Triggers on tasks involving user feedback, confirmatio...
Best practices for implementing Android ViewModels, specifically focused on StateFlow for UI state and SharedFlow for one-off events.
Guidance on implementing the Data Layer using Repository pattern, Room (Local), and Retrofit (Remote) with offline-first synchronization.
Debug and optimize Android/Gradle build performance. Use when builds are slow, investigating CI/CD performance, analyzing build scans, or identifying compilation bottlenecks.
Authoritative rules and patterns for production-quality Kotlin Coroutines onto Android. Covers structured concurrency, lifecycle integration, and reactive streams.
Comprehensive testing strategy involving Unit, Integration, Hilt, and Screenshot tests.
Implement navigation in Jetpack Compose using Navigation Compose. Use when asked to set up navigation, pass arguments between screens, handle deep links, or structure multi-screen apps.
Expert checklist and prompts for auditing and fixing Android accessibility issues, especially in Jetpack Compose.
Expert guidance on setting up scalable Gradle build logic using Convention Plugins and Version Catalogs.
Audit and improve Jetpack Compose runtime performance from code review and architecture. Use when asked to diagnose slow rendering, janky scrolling, excessive recompositions, or performance issues in Compose UI...
Kotlin Coroutines review and remediation for Android. Use when asked to review concurrency usage, fix coroutine-related bugs, improve thread safety, or resolve lifecycle issues in Kotlin/Android code.
Expert guidance on setting up and maintaining a modern Android application architecture using Clean Architecture and Hilt. Use this when asked about project structure, module setup, or dependency injection.
Convert Android XML layouts to Jetpack Compose. Use when asked to migrate Views to Compose, convert XML to Composables, or modernize UI from View system to Compose.
Best practices for building UI with Jetpack Compose, focusing on state hoisting, detailed performance optimizations, and theming. Use this when writing or refactoring Composable functions.
Guidelines for using modern CSS pseudo-elements beyond ::before and ::after. Use when styling native browser features, implementing view transitions, or reducing JavaScript dependencies. Triggers on tasks invol...
Guidelines for applying Disney's 12 principles of animation to web interfaces. Use when implementing motion, reviewing animation quality, or designing micro-interactions. Triggers on tasks involving CSS animati...
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