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NeVibeCode · 676 items

Skills for Science and research

Skills for Science and research: what each one does, an install command and example prompts.

tooluniverse-sdk mims-harvard skill Teaches your agent to write ToolUniverse Python SDK code: three calling patterns, batch runs and embedding-based tool search. CX Codex +1 397installs tooluniverse-chemical-safety mims-harvard skill A skill that assesses chemical and drug toxicity by pulling hazard classifications, ADMET predictions, and gene-disease links into one report. CX Codex +1 396installs tooluniverse-binder-discovery mims-harvard skill The skill walks an agent through small-molecule discovery for a protein target: druggability assessment, known-ligand mining, similarity expansion, ADMET filtering. CX Codex +1 390installs tooluniverse-metabolomics-analysis mims-harvard skill End-to-end metabolomics workflow for mass-spec and NMR data. It handles metabolite identification, batch correction, statistical comparisons, and metabolic pathway mapping. CX Codex +1 390installs tooluniverse-gene-enrichment mims-harvard skill Runs gene-set enrichment analysis using gseapy and clusterProfiler. Useful for interpreting differential gene expression lists without writing ad-hoc scripts. CX Codex +1 388installs tooluniverse-antibody-engineering mims-harvard skill Runs an antibody from preclinical lead to clinical candidate: humanization, affinity, structure, immunogenicity. CX Codex +1 388installs tooluniverse-gwas-drug-discovery mims-harvard skill Connects GWAS disease loci to causal genes, evaluates druggability, and prioritizes repurposing candidates via Open Targets and ChEMBL. CX Codex +1 386installs target-prioritization Agents365-ai skill The skill builds a per-gene dossier from UniProt, OpenTargets, PubMed, HPA and ChEMBL, then re-ranks your candidate genes by a composite score. CX Codex +1 2,900installs tooluniverse-infectious-disease mims-harvard skill Characterizes emerging pathogens and screens drug repurposing candidates using NCBI and ChEMBL. Designed for rapid outbreak intelligence and target discovery. CX Codex +1 381installs tooluniverse-drug-target-validation mims-harvard skill Scores a drug target from 0 to 100 across five dimensions and returns a GO or NO-GO recommendation. CX Codex +1 381installs tooluniverse-cancer-variant-interpretation mims-harvard skill Turns a gene and variant pair into a clinical report: evidence tier, treatment options, resistance mechanisms and matching trials. CX Codex +1 380installs tooluniverse-precision-medicine-stratification mims-harvard skill Splits patients into responder groups, risk tiers, or treatment-decision groups. Useful when you have genomic and clinical data and need to work out who gets what. CX Codex +1 375installs tooluniverse-gwas-snp-interpretation mims-harvard skill Pulls GWAS Catalog and Open Targets evidence for a single rsID: associations, fine-mapping sets, predicted causal genes. Useful when you need to know what a SNP does. CX Codex +1 373installs tooluniverse-crispr-screen-analysis mims-harvard skill A skill that walks CRISPR-Cas9 screen data through QC, normalization, gene-level scoring, synthetic lethality detection and pathway enrichment. CX Codex +1 373installs tooluniverse-structural-variant-analysis mims-harvard skill This skill guides clinical review of structural variants, using gene dosage, population frequencies and clinical evidence to support a classification. CX Codex +1 372installs tooluniverse-variant-analysis mims-harvard skill A skill for VCF and variant analysis: parsing, annotation, classification, notation conversion and lookups against external databases. Useful when variants need sorting out. CX Codex +1 371installs tooluniverse-adverse-event-detection mims-harvard skill Finds adverse drug event signals from FDA FAERS reports, drug labels and disproportionality stats. Returns a safety signal score from 0 to 100. CX Codex +1 369installs tooluniverse-phylogenetics mims-harvard skill Runs de novo multiple sequence alignments, builds phylogenetic trees, and computes QC metrics like treeness and saturation using PhyKIT, Biopython, and DendroPy. CX Codex +1 363installs tooluniverse-gwas-finemapping mims-harvard skill Fine-maps GWAS association loci using SuSiE, FINEMAP, and Open Targets L2G scores. Prioritizes true causal genetic variants over positional nearest-gene assumptions. CX Codex +1 362installs tooluniverse-immunotherapy-response-prediction mims-harvard skill Scores a tumor profile against TMB, MSI, PD-L1, HLA and immune gene expression, then names specific checkpoint inhibitors and flags resistance risk. CX Codex +1 360installs tooluniverse-spatial-omics-analysis mims-harvard skill A spatial multi-omics pipeline skill that turns spatially variable genes and tissue context into biological pathways and therapeutic targets. CX Codex +1 360installs tooluniverse-install-skills mims-harvard skill Checks whether the ToolUniverse research skills are present and installs them when the canary file is missing. Handy after switching clients. CX Codex +1 359installs tooluniverse-multiomic-disease-characterization mims-harvard skill Builds a disease report across genomics, transcriptomics, proteomics and pathways, then points at biomarker and drug target candidates. CX Codex +1 358installs tooluniverse-immune-repertoire-analysis mims-harvard skill Analyzes TCR and BCR sequencing data: clonotypes, diversity, clonality, and epitope specificity lookup. Built for immune monitoring and clonal expansion work. CX Codex +1 358installs tooluniverse-gwas-study-explorer mims-harvard skill Compares GWAS studies, aggregates locus effect sizes, and evaluates replication across cohorts. It runs Python code directly using GWAS Catalog and Open Targets data. CX Codex +1 357installs tooluniverse-metabolomics mims-harvard skill A skill for metabolomics work: annotates metabolites via HMDB, pulls study records from MetaboLights and Metabolomics Workbench, and writes a report. CX Codex +1 355installs deep-research Alireza Rezvani skill Runs multi-source research for decisions where a weak answer is costly. It saves the plan, evidence, findings and targets for later updates. 83installs tooluniverse-variant-interpretation mims-harvard skill Takes a raw variant call through databases, predictors and structure analysis to an ACMG classification with recommendations. Useful for VUS work and non-coding variant questions. CX Codex +1 351installs tooluniverse-polygenic-risk-score mims-harvard skill Builds and interprets polygenic risk scores from GWAS summary statistics: variant selection, weights, validation in an independent cohort, and plain-language reading of the result. CX Codex +1 348installs paper-review EvoScientist skill Runs an adversarial three-pass self-review on your academic paper draft before submission. CX Codex +1 507installs paper-writing EvoScientist skill Runs an 11-step workflow for academic papers, from the pipeline figure sketch to final revisions. Useful when you need a draft of the Introduction or Method, not a finished manuscript. CX Codex +1 504installs math-teacher jamesrochabrun skill Generates playful, browser-based math playgrounds with interactive graphs and game mechanics. Helps learners explore arithmetic, algebra, and calculus visually. CX Codex +1 871installs tooluniverse-single-cell mims-harvard skill A skill that walks an agent through scRNA-seq analysis on scanpy and anndata: h5ad loading, QC gating, clustering, cell-type annotation. CX Codex +1 338installs tavily-search framix-team skill Integrates Tavily API into your coding agent for web search, text extraction, site crawling, and research reports. Works as an AI-oriented search replacement. CX Codex +1 840installs deep-research sanjay3290 skill Runs multi-step autonomous investigations using the Google Gemini Deep Research Agent. Generates cited technical reports, market overviews, and competitive matrices. CX Codex +1 672installs humanize-academic-writing momo2young skill Rewrites AI-assisted social science drafts into authentic academic prose. It helps researchers smooth out mechanical phrasing when editing their original work. CX Codex +1 2,000installs research-ideation EvoScientist skill Guides research ideation from literature grounding and multi-persona brainstorming to ELO ranking and structured research proposals. CX Codex +1 483installs academic-slides EvoScientist skill Structures academic conference talks, breaks research papers into slides, and generates .pptx decks with backup slides for Q&A. CX Codex +1 481installs deep-research coreyhaines31 skill Runs multi-pass research across several sources and writes a brief with citations, contradictions and gaps. Useful before a sales call or a tech pick. CX Codex +1 344installs paper-rebuttal EvoScientist skill Guides researchers through writing author rebuttals after peer review. It maps reviewer objections to scores and focuses effort on points that actually decide acceptance. CX Codex +1 441installs

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