Research & Science

RNA-seq specific quality control including rRNA contamination detection, strandedness verification, gene body coverage, and transcript integrity metrics.

FreedomIntelligence/OpenClaw-Medical-Skills

Integrate multiple scRNA-seq samples/batches using Harmony, scVI, Seurat anchors, and fastMNN.

FreedomIntelligence/OpenClaw-Medical-Skills

Automated cell type annotation using reference-based methods including CellTypist, scPred, SingleR, and Azimuth for consistent, reproducible cell labeling.

FreedomIntelligence/OpenClaw-Medical-Skills

Dimensionality reduction and clustering for single-cell RNA-seq using Seurat (R) and Scanpy (Python).

FreedomIntelligence/OpenClaw-Medical-Skills

Find marker genes and annotate cell types in single-cell RNA-seq using Seurat (R) and Scanpy (Python).

FreedomIntelligence/OpenClaw-Medical-Skills

Analyze multi-modal single-cell data (CITE-seq, Multiome, spatial).

FreedomIntelligence/OpenClaw-Medical-Skills

Analyze cell-cell communication in spatial transcriptomics data using ligand-receptor analysis with Squidpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Estimate cell type composition in spatial transcriptomics spots using reference-based deconvolution.

FreedomIntelligence/OpenClaw-Medical-Skills

Identify spatial domains and tissue regions in spatial transcriptomics data using Squidpy and Scanpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Build spatial neighbor graphs for spatial transcriptomics data using Squidpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Quality control, filtering, normalization, and feature selection for spatial transcriptomics data.

FreedomIntelligence/OpenClaw-Medical-Skills

Compute spatial statistics for spatial transcriptomics data using Squidpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Visualize spatial transcriptomics data using Squidpy and Scanpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Analyze BCR repertoires for somatic hypermutation, clonal lineages, and B cell phylogenetics using the Immcantation framework.

FreedomIntelligence/OpenClaw-Medical-Skills

Analyze single-cell TCR and BCR data integrated with gene expression using scirpy.

FreedomIntelligence/OpenClaw-Medical-Skills

Guide Claude through omicverse's bulk RNA-seq DEG pipeline, from gene ID mapping and DESeq2 normalization to statistical testing, visualization, and pathway enrichment.

FreedomIntelligence/OpenClaw-Medical-Skills

Execute autonomous multi-step deep research on any topic. An agent skill from FreedomIntelligence/OpenClaw-Medical-Skills.

FreedomIntelligence/OpenClaw-Medical-Skills

Generate research questions from existing materials — codebooks, survey questionnaires, datasets, or published papers/abstracts.

joshzyj/open-scholar-skill

Explore citation relationships around a known paper to find related work, cited papers, and citing papers.

ymx10086/ResearchClaw

Synthesizes scattered research, scratch files, and work logs into durable knowledge artifacts — GUIDES, PLANS, or research syntheses.

aaif-goose/goosetown

Run an independent peer review via Codex. An agent skill from tobihagemann/turbo.

tobihagemann/turbo

Review a plan by running internal reviews and a peer review in parallel and returning combined findings.

tobihagemann/turbo

Use Boltz2 NIM for biomolecular structure prediction and binding affinity.

NVIDIA/skills

Searches across your Notion workspace, synthesizes findings from multiple pages, and creates comprehensive research documentation saved as new Notion pages.

rongxinzy/RongxinAI

A skill your agent uses when the user explicitly asks for Nature Skills, nature-skills, Nature style, Nature-style, Nature Communications, Nature-family, CNS, high-impact journal, or Springer Nature…

ZimoLiao/scholaraio

Simulation-based sample-size planning for neuroimaging studies using effect-size maps

NeuroAIHub/BrainPilot

Interactive skill verification — assess accuracy of parameters, citations, and methodology through structured expert review

NeuroAIHub/BrainPilot

Scopus relevance search (main) enriched with OpenAlex abstracts and OA links, via the rp tools pipeline

wentorai/Research-Claw

Use parallel subagents to scale large reviews, with an honest model of where the speedup actually comes from (LLM reasoning, not API throughput)

wentorai/Research-Claw

Backward (references) and forward (citing papers) traversal via OpenAlex, with relevance filtering and deduplication

wentorai/Research-Claw

Query cBioPortal for cancer genomics data including somatic mutations, copy number alterations, gene expression, and survival data across hundreds of cancer studies.

LeonChaoX/qinyan-academic-skills

Query gnomAD (Genome Aggregation Database) for population allele frequencies, variant constraint scores (pLI, LOEUF), and loss-of-function intolerance.

LeonChaoX/qinyan-academic-skills

Query JASPAR for transcription factor binding site (TFBS) profiles (PWMs/PFMs).

LeonChaoX/qinyan-academic-skills

A skill your agent uses when a medical AI paper should be found and cited by AI search engines and RAG tools.

Aperivue/medsci-skills

A skill your agent uses when a target journal has no profile yet.

Aperivue/medsci-skills

A skill your agent uses when analyzing a researcher's publication record from PubMed.

Aperivue/medsci-skills

A skill your agent uses when planning how many patients or cases a study needs before data collection (power analysis, IRB justification).

Aperivue/medsci-skills

A skill your agent uses when comparing an exposure-outcome association across countries with parallel national surveys (KNHANES, NHANES, CHNS).

Aperivue/medsci-skills

A skill your agent uses when exposure, outcome, covariate or eligibility definitions and cutoffs need a citable basis before the protocol.

Aperivue/medsci-skills

A skill your agent uses when clinical data may contain PHI and must be de-identified before any LLM-assisted analysis.

Aperivue/medsci-skills

A skill your agent uses when you need full-text PDFs for a list of DOIs, such as a meta-analysis screening set.

Aperivue/medsci-skills

A skill your agent uses when starting or inheriting a radiology research project and need to know what it is.

Aperivue/medsci-skills

A skill your agent uses when applying a published cohort study's methodology to a different database.

Aperivue/medsci-skills

A skill your agent uses when a skill fails for a missing tool or the environment needs checking.

Aperivue/medsci-skills

Enforce the replication-protocol.md rule by cross-checking numeric claims in a manuscript against the actual R / Stata / Python outputs.

pedrohcgs/claude-code-my-workflow

Comprehensive manuscript review with three modes: single-pass (default), --adversarial critic-fixer loop, and --peer [journal] simulated peer-review pipeline (editor + 2 dispositioned referees +…

pedrohcgs/claude-code-my-workflow

Consolidates literature review, idea discovery, refined proposal, experiment plan, experiment results, and automated review into a single NARRATIVEREPORT.md that is rich enough to drive the…

GRIND-Lab-Core/night_owl_research_agent

Master skill for Abaqus FEA scripting. An agent skill from Cai-aa/CAE-Agent-Hub.

Cai-aa/CAE-Agent-Hub