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Claude Skills by lilinji

github.com/lilinji

193 skillsA× 1930 installs365 views

Sc Multi CountALoad when merging multiple single-sample scRNA-seq count matrices (one per sample-from-sc-count)datapythongoVotes: 0GitHub stars: 8
Sc Pathway ScoringALoad when computing per-cell pathway / gene-set scores on a normalised scRNA AnnData viadatapythongoVotes: 0GitHub stars: 8
Sc Perturb PrepALoad when attaching cell-barcode → sgRNA assignments from a mapping TSV/CSV onto a Perturb-seqdatapythongoVotes: 0GitHub stars: 8
Sc PerturbALoad when classifying perturbed vs non-perturbed cells in a Perturb-seq / CRISPR-screen scRNAdatapythongoVotes: 0GitHub stars: 8
Sc PreprocessingALoad when normalising QC'd scRNA into a PCA-ready AnnData via scanpy / Seurat / SCTransformdatapythonrustVotes: 0GitHub stars: 8
Sc PseudotimeALoad when ordering cells along a developmental trajectory in a normalised scRNA AnnData viadatapythongoVotes: 0GitHub stars: 8
Sc QcALoad when computing per-cell QC metrics (n_genes, total counts, mt%, ribo%) on a single-celldatapythongoVotes: 0GitHub stars: 8
Sc Standardize InputALoad when an external single-cell h5ad/h5/loom/mtx needs to be canonicalised onto the OmicsClawdatapythongoVotes: 0GitHub stars: 8
Sc Velocity PrepALoad when generating spliced / unspliced layers from Cell Ranger BAM, FASTQ, STARsolo output,datapythongoVotes: 0GitHub stars: 8
Sc VelocityALoad when computing RNA velocity vectors on a scRNA AnnData with spliced / unspliced layersdatapythongoVotes: 0GitHub stars: 8
Scatac PreprocessingALoad when preprocessing a single-cell ATAC peak × cell AnnData via Signac-style TF-IDF +datapythongoVotes: 0GitHub stars: 8
Secure BootAEstablish a root of trust and verify firmware integrity/authenticity from reset through handoff, including anti-rollback and recovery.securityrustgoVotes: 0GitHub stars: 8
Secure OtaAEnsure OTA updates are authenticated, integrity-checked, atomic, and safely recoverable, with regulatory considerations for software changes.securitygosecurityVotes: 0GitHub stars: 8
Separation Of ConcernsADefine architectural partitioning to contain failures, simplify verification, and align safety classes with appropriate isolation.code-qualityreacttestingVotes: 0GitHub stars: 8
Spatial AnnotateALoad when assigning per-spot cell-type labels on a spatial AnnData via marker-gene scoringdatapythongoVotes: 0GitHub stars: 8
Spatial CnvALoad when inferring copy-number variation per spot on a preprocessed spatial AnnData withdatapythongoVotes: 0GitHub stars: 8
Spatial CommunicationALoad when computing ligand-receptor cell-cell communication on a preprocessed spatial AnnDatadatapythongoVotes: 0GitHub stars: 8
Spatial ConditionALoad when comparing two or more experimental conditions (treatment vs control) on a multi-sampledatapythongoVotes: 0GitHub stars: 8
Spatial DeALoad when ranking spatial cluster markers or comparing two spatial groups in spatial transcriptomics.datapythongoVotes: 0GitHub stars: 8
Spatial DeconvALoad when deconvolving spot-level cell-type proportions on a Visium-style spatial AnnDatadatapythongoVotes: 0GitHub stars: 8
Spatial DomainsALoad when detecting tissue domains / niches on a preprocessed spatial AnnData via LeidendatapythongoVotes: 0GitHub stars: 8
Spatial EnrichmentALoad when running pathway / gene-set enrichment per cluster on a preprocessed spatial AnnDatadatapythongoVotes: 0GitHub stars: 8
Spatial GenesALoad when ranking spatially variable genes (SVGs) on a preprocessed spatial AnnData via Moran'sdatapythongoVotes: 0GitHub stars: 8
Spatial IntegrateALoad when removing batch effects across multiple spatial samples on a multi-batch spatialdatapythongoVotes: 0GitHub stars: 8
Spatial Microenvironment SubsetALoad when extracting a niche / microenvironment subset around a center cell-type by spatialdatapythongoVotes: 0GitHub stars: 8
Spatial PreprocessALoad when running the foundational spatial transcriptomics QC + filtering + normalisationdatapythongoVotes: 0GitHub stars: 8
Spatial Raw ProcessingALoad when converting spatial transcriptomics raw FASTQ pairs through ST-Pipeline into a `raw_counts.h5ad`datapythongoVotes: 0GitHub stars: 8
Spatial RegisterALoad when aligning multiple spatial slices into a common coordinate frame on a multi-slicedatapythongoVotes: 0GitHub stars: 8
Spatial StatisticsALoad when running spatial autocorrelation / hotspot / co-occurrence / neighbourhood-enrichmentdatapythongoVotes: 0GitHub stars: 8
Spatial TrajectoryALoad when inferring pseudotime / lineage trajectories on a preprocessed spatial AnnData viadatapythongoVotes: 0GitHub stars: 8
Spatial VelocityALoad when estimating RNA velocity on a spatial AnnData with `layers["spliced"]` + `layers["unspliced"]`datapythongoVotes: 0GitHub stars: 8
State MachinesADefine explicit, testable state machines with safe states, controlled transitions, and error handling suited to medical device safety classes.code-qualityVotes: 0GitHub stars: 8
Static AnalysisAUse static analysis (SAST) to detect defects and nonconformities (MISRA, CERT) early, with triage and traceability appropriate to safety class.code-qualityc++apiVotes: 0GitHub stars: 8
Test DocsADefine structure and content for test plans, protocols, and reports that support regulatory submissions and internal verification.documentationdocumentationVotes: 0GitHub stars: 8
Threat ModelingAIdentify, prioritize, and mitigate security threats for medical devices, integrating with risk management and informing control selection.testingrustsecurityVotes: 0GitHub stars: 8
Tooluniverse Protein InteractionsAAnalyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases. Maps protein identifiers, retrieves interaction networks with confidence scores, performs functional enrichment analysis (GO/KEGG/Reactome), and optionally includes structural data. No API key required for core functionality (STRING). Use when analyzing protein networks, discovering interaction partners, identifying functional modules, or studying protein complexes.researchpythongoVotes: 0GitHub stars: 8
TraceabilityAEnsure bidirectional traceability between requirements, hazards/risks, design, code, tests, and anomalies for medical device software.dataVotes: 0GitHub stars: 8
Unit TestingAEstablish patterns for unit tests that verify software units against requirements with safety-class-appropriate rigor.testinggotestingVotes: 0GitHub stars: 8
Usb MedicalAImplement safe USB device connectivity: class selection, enumeration handling, data validation, electrical and safety considerations.testingrustsecurityVotes: 0GitHub stars: 8
UsmleAPrepare for US medical licensing exams with progress tracking, weak area analysis, question bank management, and residency match planning.datagogitVotes: 0GitHub stars: 8
Vcf AnnotatorAAnnotate VCF variants with Ensembl VEP, ClinVar, and gnomAD. Ranks variants by impact (HIGH/MODERATE/LOW/MODIFIER) and generates a reproducible report.datapythongoVotes: 0GitHub stars: 8
Wifi MedicalASecure and robust WiFi connectivity for medical devices: WPA3/enterprise auth, certificate management, coexistence, resilience, and hospital network integration.securityrustgoVotes: 0GitHub stars: 8
Wikipedia SearchASearch and fetch structured content from Wikipedia using the MediaWiki API for reliable, encyclopedic informationdocumentationpythongoVotes: 0GitHub stars: 8

Claude Skills by lilinji — 193 skills, security-graded | Skills Directory