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Claude Skills by aipoch
github.com/aipoch605 skills11 installs808 views
- Arxiv PreflightRun a submission-readiness preflight on a manuscript before arXiv upload. Use when the user is preparing an arXiv submission, asks to check a paper before uploading, mentions hallucinated or fake references, leftover LLM meta-comments / prompts in text, placeholder data (TODO, TBD, XX%), AI-use disclosure, scholarly integrity, research integrity, or arXiv moderation risk — even if they don't say \"preflight\". Also trigger on phrases like \"check my paper before arXiv\", \"verify my reference...Votes: 0GitHub stars: 1,793
- Author Response BuilderTurns reviewer comments into structured, professional point-by-point responses linked to manuscript revisions, clarifications, rebuttals, and additional analyses.Votes: 0GitHub stars: 1,793
- Claim Strength CalibratorCalibrates manuscript claim strength so wording matches the actual evidence level, study design, and validation status.Votes: 0GitHub stars: 1,793
- Conference Abstract WriterCondenses a full study into conference-submission abstract format. Use when adapting a manuscript abstract or study summary to meet a specific conference's word limit, structured format (Background/Methods/Results/Conclusion), character limits, or required section headings. Also triggers on "adapt my abstract for [conference]", "shorten my abstract to 250 words", "reformat for ASCO/ASGCT/SfN/AACR", "I need a conference abstract", or "cut my abstract to fit the word limit".Votes: 0GitHub stars: 1,793
- Consistency Checker Across ManuscriptChecks consistency across title, abstract, methods, results, figures, tables, and supplements to identify internal contradictions and version drift in biomedical manuscripts.Votes: 0GitHub stars: 1,793
- Cover Letter DrafterDrafts journal-ready cover letters for manuscript submission. Use when preparing a submission package, communicating the manuscript's contributions and journal fit to editors, or tailoring the novelty framing for a specific journal's scope. Also triggers on "write a cover letter for my paper", "draft a submission cover letter", "help me write to the editor", or "cover letter for [journal name]".Votes: 0GitHub stars: 1,793
- Discussion ComposerComposes a Discussion around key findings, mechanisms, clinical relevance, and limitations. Use when writing or improving a Discussion section for any biomedical manuscript — including interpreting results, connecting to prior literature, addressing unexpected findings, framing limitations, and writing the conclusion. Also triggers on "write my discussion", "help me discuss my findings", "how do I compare to prior studies", "write the limitations paragraph", or "draft a discussion for my paper".Votes: 0GitHub stars: 1,793
- Figure Legend WriterWrites complete, publication-grade figure legends that can stand on their own. Use when writing or revising figure legends for any scientific figure — bar charts, line graphs, scatter plots, box plots, heatmaps, survival curves, flow cytometry plots, western blots, microscopy images, or schematic diagrams. Also triggers on "write a figure legend for", "help me describe this figure", "my figure needs a legend", "write Figure 1 legend", or "what should a figure legend include".Votes: 0GitHub stars: 1,793
- Grant Specific Aims WriterWrites Specific Aims pages for grant applications. Use when drafting or revising the Specific Aims page (NIH R01/R21/R03), NSF Project Summary, or equivalent for any major funding agency. Also triggers on "write my specific aims", "help me draft specific aims for NIH", "what should a specific aims page include", "NSF project summary", "write my grant aims", or "how do I structure an R01".Votes: 0GitHub stars: 1,793
- Graphical Abstract GeneratorConverts a biomedical study storyline into a graphical abstract and, when direct image capability is available, generates the graphical abstract directly; otherwise it falls back to prompts, Mermaid flowcharts, or designer-facing briefs.Votes: 0GitHub stars: 1,793
- Introduction Logic BuilderBuilds background-gap-objective logic for biomedical manuscript introductions with clear study positioning and disciplined narrative structure.Votes: 0GitHub stars: 1,793
- Introduction Section WriterWrites the full Introduction section of a biomedical manuscript based on an approved or sufficiently clear study logic, while preserving evidence boundaries and introduction discipline.Votes: 0GitHub stars: 1,793
- Latex Manuscript Format ConverterConverts existing manuscript content into LaTeX format aligned with a target journal, conference, or template while preserving manuscript meaning and structural integrity.Votes: 0GitHub stars: 1,793
- Lay Summary For Cross Disciplinary TeamsRewrites technical research content into a structured lay summary that cross-disciplinary teams can quickly understand and act on. Use when the user wants to explain research to colleagues outside their specialty — clinicians, wet-lab scientists, bioinformaticians, product managers, or leadership. Trigger on: "lay summary", "explain my research to the team", "non-technical summary", "cross-disciplinary summary", "translate my findings", "align our team on the study", or any request to communi...Votes: 0GitHub stars: 1,793
- Limitation And Risk WriterAcknowledges limitations in sample, design, measurement, and validation in a professional way that improves credibility without undermining the whole paper. Use when writing the limitations paragraph of a Discussion section, preparing a grant risk assessment, responding to reviewers about study weaknesses, or framing scope boundaries for a paper. Also triggers on "write my limitations", "how should I address the limitation of", "reviewer said my sample is too small", or "help me word this lim...Votes: 0GitHub stars: 1,793
- Medical English Precision EditorImproves medical English precision without changing the underlying facts, evidence boundaries, or intended scientific meaning.Votes: 0GitHub stars: 1,793
- Methods Section WriterTurns your protocol and analysis workflow into publication-ready Methods text. Use when writing or revising the Methods section of a biomedical manuscript, ensuring it complies with reporting guidelines (CONSORT, STROBE, PRISMA, TRIPOD), matches what is in the Results section, and satisfies journal-specific word limits and declarations. Also triggers on "write my methods", "revise my methods section", "how to report my statistics", "what do I need to include in methods for [study type]", or "...Votes: 0GitHub stars: 1,793
- Paper Sprint ReviewScrum-inspired paper review, revision, and R&R workflow. Handles docx/tex/md/PDF in English or Chinese. Auto-detects manuscript stage, estimates sprint count, runs multi-lens review (Contribution/Rigor/Writing/Editor), generates prioritized revision backlog, exports MD/DOCX/PDF/HTML reports. Use when asked to review a paper, revise based on reviewer comments, handle R&R, respond to peer review, plan paper revision sprints, or when user types /ps or /papersprint.Votes: 0GitHub stars: 1,793
- Poster Storyline BuilderReorganizes a paper into a storyline suitable for scientific posters. Use when planning the section structure, title hierarchy, figure selection, and live-explanation flow for an academic conference poster. Also triggers on "help me design a poster layout", "what sections should my poster have", "how do I arrange my poster", "poster structure for [conference]", or "which figures should I use for my poster".Votes: 0GitHub stars: 1,793
- Reference Integrity CheckerChecks whether manuscript references are accurately matched to claims, appropriately scoped, and not overextended, misquoted, or second-hand cited.Votes: 0GitHub stars: 1,793
- Reporting Guideline Compliance CheckerChecks biomedical manuscripts against reporting guidelines such as CONSORT, STROBE, PRISMA, and TRIPOD to identify missing or weak reporting elements before submission or revision.Votes: 0GitHub stars: 1,793
- Results Section StructurerOrganizes biomedical figures, analyses, and result blocks into a clear Results section structure with disciplined narrative ordering and evidence-aware presentation.Votes: 0GitHub stars: 1,793
- Results Section WriterWrites the full Results section of a biomedical manuscript from a sufficiently clear result structure, figure inventory, or analysis summary while preserving evidence boundaries and result hierarchy.Votes: 0GitHub stars: 1,793
- Revision Strategy PlannerBuilds prioritized manuscript revision plans for major or minor revisions by separating comments that require experiments, analyses, clarification, restructuring, or wording changes.Votes: 0GitHub stars: 1,793
- Slide Deck For Lab MeetingStructures research progress into focused and actionable slides for lab meetings or project reviews without inventing missing content.Votes: 0GitHub stars: 1,793
- Table Narrative WriterConverts biomedical table content into clear manuscript or presentation narrative by prioritizing meaningful patterns, contrasts, and interpretation boundaries rather than restating every number.Votes: 0GitHub stars: 1,793
- Target Journal MatcherMatches your study to appropriate journals based on topic, design, and evidence strength. Use when deciding where to submit a manuscript, comparing journal options by impact factor vs scope fit vs method tolerance, or finding a realistic submission target after a rejection. Also triggers on "where should I submit this paper", "which journal is best for my study", "find journals for my manuscript", "is this a good fit for [journal]", or "I need a journal with IF around X".Votes: 0GitHub stars: 1,793
- Title And Abstract OptimizerOptimizes manuscript titles and abstracts for information density, factual accuracy, and submission fit in biomedical research writing.Votes: 0GitHub stars: 1,793
- LightGBM AnalysisUse when training a LightGBM model on tabular data in R and returning model metrics, feature importance ranking tables, and feature importance plots.Votes: 0GitHub stars: 1,793
- XGBoost AnalysisUse when building XGBoost models on tabular data and returning feature importance ranking outputs. Supports binary classification and regression with automatic task detection, train-test split, performance tables, feature importance ranking tables, and PNG importance plots.Votes: 0GitHub stars: 1,793
- Batch Effect CorrectionUse when correcting batch effects in merged bulk expression matrices with sample-level batch metadata while preserving biological group structure and generating before-and-after QC plots. NOT for: single-cell integration, raw FASTQ processing, differential expression without batch labels, or datasets without biological groups.Votes: 0GitHub stars: 1,793
- Cerna AnalysisUse when building a ceRNA regulatory network from a key gene list by combining bundled miRNA-mRNA and miRNA-lncRNA database files, with flat-file CSV exports and PDF visualization in a single output directory. NOT for: differential expression, single-cell analysis, enrichment analysis, or workflows without a key gene list.Votes: 0GitHub stars: 1,793
- Cibersort Immune Infiltration AnalysisUse when estimating relative immune cell infiltration from a bulk expression matrix with a CIBERSORT-style nu-SVR deconvolution workflow based on an LM22 signature matrix, comparing one case group against one control group, and generating structured tables plus immune-fraction plots. NOT for single-cell RNA-seq, spatial data, clinical diagnosis, or workflows that require the original hosted CIBERSORT web service.Votes: 0GitHub stars: 1,793
- Consensus Clustering AnalysisUse when identifying stable sample subtypes from bulk expression matrices with ConsensusClusterPlus, including PAC-based model selection and consensus matrix/CDF visualization. NOT for: differential expression analysis, single-cell clustering workflows, or non-expression tables.Votes: 0GitHub stars: 1,793
- Decision Curve AnalysisUse when evaluating the clinical utility of a binary prediction model from a single clinical CSV file by fitting a logistic decision-curve model, plotting decision and clinical-impact curves, and exporting summary outputs. NOT for: survival calibration, ROC-only discrimination analysis, nomogram construction, or time-to-event outcomes.Votes: 0GitHub stars: 1,793
- Decision Tree AnalysisUse when building a decision tree model in R and generating feature importance ranking outputs. Supports classification and regression, automatic task detection, parameter validation, model evaluation summaries, and exports of feature-importance tables and figures.Votes: 0GitHub stars: 1,793
- Deg Screening AnalysisUse when screening differentially expressed genes from a bulk expression matrix between two user-specified groups, producing DEG tables, a volcano plot, and a clustered heatmap. Triggers include DEG analysis, volcano plot, clustered heatmap, limma-based two-group comparison, and case-vs-control screening. NOT for single-cell RNA-seq, multi-group contrasts, count-model workflows such as DESeq2/edgeR, or non-expression omics data.Votes: 0GitHub stars: 1,793
- Differential Expression AnalysisUse when analyzing bulk RNA-seq or microarray expression data to identify differentially expressed genes between two biological groups (case vs control), with volcano plots and heatmap visualization. NOT for:single-cell RNA-seq, methylation analysis, non-expression data.Votes: 0GitHub stars: 1,793
- Elastic Net Feature SelectionUse when selecting predictive genes or other molecular features from bulk expression matrices for binary case-vs-control classification with elastic net logistic regression, including coefficient path and cross-validation plots. Trigger keywords: elastic net, glmnet, feature selection, binary classification, lambda.min, lambda.1se. NOT for: survival/Cox modeling, multiclass outcomes, single-cell data, or non-expression tables.Votes: 0GitHub stars: 1,793
- Estimate Immune Score AnalysisUse this skill to compute ESTIMATE immune-related microenvironment scores from a bulk expression matrix, generate an ESTIMATE score heatmap, and optionally generate group-wise ESTIMATE score boxplots plus significance tables when a sample group file is supplied. Trigger keywords: ESTIMATE, immune score, stromal score, tumor microenvironment score. NOT for: immune cell deconvolution, single-cell analysis, differential expression, clinical diagnosis.Votes: 0GitHub stars: 1,793
- External Model ValidationUse when validating an existing prognostic risk signature on an external bulk expression cohort with survival outcomes, producing risk scores, Kaplan-Meier curves, risk distribution plots, heatmap, and time-dependent ROC curves. NOT for: model training, feature selection, nomogram construction, calibration analysis, or single-cell data.Votes: 0GitHub stars: 1,793
- Gene Protein Expression Matrix NormalizationUse when normalizing bulk gene or protein expression matrices with log2 transform, z-score standardization, or min-max scaling before downstream visualization or exploratory analysis. NOT for count-model normalization such as TPM/DESeq2 size factors, batch correction, or single-cell preprocessing.Votes: 0GitHub stars: 1,793
- GokeggUse when performing GO and KEGG enrichment on a gene list from bulk RNA-seq or microarray studies, then generating a combined GO/KEGG dot chart. NOT for single-cell RNA-seq, methylation data, or non-expression data.Votes: 0GitHub stars: 1,793
- GseaRun GSEA on a ranked gene list and produce the enrichment table, running-score table, and enrichment plots.Votes: 0GitHub stars: 1,793
- Gsva Analysis And VisualizationUse this skill to run GSVA or ssGSEA pathway-level differential analysis from a bulk expression matrix and a sample group file, then generate a heatmap from the saved GSVA result object. Trigger keywords: GSVA, ssGSEA, pathway enrichment, KEGG pathway analysis, MSigDB. NOT for: gene-level differential expression, single-cell analysis, methylation analysis, clinical diagnosis.Votes: 0GitHub stars: 1,793
- Hierarchical Clustering PlotUse when building a sample-level hierarchical clustering dendrogram from a bulk expression matrix and sample annotation table, especially for QC, batch inspection, or sample similarity assessment. Trigger keywords: hierarchical clustering, dendrogram, sample QC, batch inspection, sample similarity. NOT for: differential expression testing, gene clustering heatmaps, single-cell clustering workflows.Votes: 0GitHub stars: 1,793
- Immune Pathway AnalysisRun immune pathway GSVA or ssGSEA analysis from a bulk expression matrix, a sample group file, and a local immune Reactome gene-set table, then export differential pathway results and a heatmap for two-group comparison.Votes: 0GitHub stars: 1,793
- Km Survival CurveUse when generating Kaplan-Meier survival curves from tabular survival data containing time, event status, and a precomputed risk group. Supports command-line parameter input, parameter validation, automatic time-unit handling, single-file PDF figure export, and session metadata capture.Votes: 0GitHub stars: 1,793
- Knn ImputationUse when filtering genes with high missingness and then imputing missing values in a bulk expression matrix with group-aware KNN through DMwR2, where donor samples are restricted by one annotation column before imputation. For strata with 10 or fewer samples, the script falls back to row-wise direct filling with mean or median. NOT for: single-cell data, multi-column stratification, non-tabular inputs, network access, or interactive workflows.Votes: 0GitHub stars: 1,793
- Lasso Logistics AnalysisUse when building a binary classification model from an expression matrix or other omics feature matrix with LASSO logistic regression, cross-validation, and coefficient path visualization. NOT for: multiclass classification, survival/Cox models, or ordinary linear regression.Votes: 0GitHub stars: 1,793