# aipoch > Open-source publisher. Listings imported from github.com/aipoch — credited to the original author with their license. - **Listings:** 51 - **Total installs:** 0 - **Profile:** https://agentstack.voostack.com/s/aipoch - **Website:** https://github.com/aipoch ## Published listings - [Revision Strategy Planner](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-revision-strategy-planner) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-revision-strategy-planner` Builds prioritized manuscript revision plans for major or minor revisions by separating comments that require experiments, analyses, clarification, restructuring, or wording changes. - [Hierarchical Clustering Plot](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-hierarchical-clustering-plot) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-hierarchical-clustering-plot` Use 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 workflow… - [Open Science](https://agentstack.voostack.com/l/mcp-aipoch-open-science) — MCP server · Free · security-reviewed — `agentstack add mcp-aipoch-open-science` An open-source, model-agnostic AI workbench for scientific discovery. - [Table Narrative Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-table-narrative-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-table-narrative-writer` Converts biomedical table content into clear manuscript or presentation narrative by prioritizing meaningful patterns, contrasts, and interpretation boundaries rather than restating every number. - [Lay Summary For Cross Disciplinary Teams](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-lay-summary-for-cross-disciplinary-teams) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-lay-summary-for-cross-disciplinary-teams` >- - [Author Response Builder](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-author-response-builder) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-author-response-builder` Turns reviewer comments into structured, professional point-by-point responses linked to manuscript revisions, clarifications, rebuttals, and additional analyses. - [Consistency Checker Across Manuscript](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-consistency-checker-across-manuscript) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-consistency-checker-across-manuscript` Checks consistency across title, abstract, methods, results, figures, tables, and supplements to identify internal contradictions and version drift in biomedical manuscripts. - [Paper Sprint Review](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-paper-sprint-review) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-paper-sprint-review` Scrum-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, p… - [Introduction Section Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-introduction-section-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-introduction-section-writer` Writes the full Introduction section of a biomedical manuscript based on an approved or sufficiently clear study logic, while preserving evidence boundaries and introduction discipline. - [Knn Imputation](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-knn-imputation) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-knn-imputation` Use 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 i… - [Batch Effect Correction](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-batch-effect-correction) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-batch-effect-correction` Use 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. - [Differential Expression Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-differential-expression-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-differential-expression-analysis` Use 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. - [External Model Validation](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-external-model-validation) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-external-model-validation` Use 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. - [Target Journal Matcher](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-target-journal-matcher) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-target-journal-matcher` Matches 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"… - [Introduction Logic Builder](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-introduction-logic-builder) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-introduction-logic-builder` Builds background-gap-objective logic for biomedical manuscript introductions with clear study positioning and disciplined narrative structure. - [Medical English Precision Editor](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-medical-english-precision-editor) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-medical-english-precision-editor` Improves medical English precision without changing the underlying facts, evidence boundaries, or intended scientific meaning. - [Discussion Composer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-discussion-composer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-discussion-composer` Composes 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… - [Gsea](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-gsea) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-gsea` Run GSEA on a ranked gene list and produce the enrichment table, running-score table, and enrichment plots. - [Gokegg Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-gokegg) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-gokegg` Use 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. - [Slide Deck For Lab Meeting](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-slide-deck-for-lab-meeting) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-slide-deck-for-lab-meeting` Structures research progress into focused and actionable slides for lab meetings or project reviews without inventing missing content. - [Title And Abstract Optimizer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-title-and-abstract-optimizer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-title-and-abstract-optimizer` Optimizes manuscript titles and abstracts for information density, factual accuracy, and submission fit in biomedical research writing. - [Poster Storyline Builder](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-poster-storyline-builder) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-poster-storyline-builder` Reorganizes 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… - [Lightgbm Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-lightgbm-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-lightgbm-analysis` Use when training a LightGBM model on tabular data in R and returning model metrics, feature importance ranking tables, and feature importance plots. - [Gsva Analysis And Visualization](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-gsva-analysis-and-visualization) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-gsva-analysis-and-visualization` Use 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. - [Reference Integrity Checker](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-reference-integrity-checker) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-reference-integrity-checker` Checks whether manuscript references are accurately matched to claims, appropriately scoped, and not overextended, misquoted, or second-hand cited. - [Deg Screening Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-deg-screening-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-deg-screening-analysis` Use 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/edg… - [Claim Strength Calibrator](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-claim-strength-calibrator) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-claim-strength-calibrator` Calibrates manuscript claim strength so wording matches the actual evidence level, study design, and validation status. - [Results Section Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-results-section-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-results-section-writer` Writes 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. - [Elastic Net Feature Selection](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-elastic-net-feature-selection) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-elastic-net-feature-selection` Use 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… - [Conference Abstract Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-conference-abstract-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-conference-abstract-writer` Condenses 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… - [Gene Protein Expression Matrix Normalization](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-gene-protein-expression-matrix-normalization) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-gene-protein-expression-matrix-normalization` Use 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. - [Cerna Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-cerna-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-cerna-analysis` Use 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. - [Results Section Structurer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-results-section-structurer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-results-section-structurer` Organizes biomedical figures, analyses, and result blocks into a clear Results section structure with disciplined narrative ordering and evidence-aware presentation. - [Consensus Clustering Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-consensus-clustering-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-consensus-clustering-analysis` Use 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. - [Graphical Abstract Generator](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-graphical-abstract-generator) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-graphical-abstract-generator` Converts 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. - [Xgboost Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-xgboost-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-xgboost-analysis` Use 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. - [Km Survival Curve](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-km-survival-curve) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-km-survival-curve` Use 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. - [Figure Legend Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-figure-legend-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-figure-legend-writer` Writes 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 ne… - [Decision Curve Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-decision-curve-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-decision-curve-analysis` Use 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. - [Limitation And Risk Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-limitation-and-risk-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-limitation-and-risk-writer` Acknowledges 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 shou… - [Decision Tree Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-decision-tree-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-decision-tree-analysis` Use 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. - [Grant Specific Aims Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-grant-specific-aims-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-grant-specific-aims-writer` Writes 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". - [Lasso Logistics Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-lasso-logistics-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-lasso-logistics-analysis` Use 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. - [Latex Manuscript Format Converter](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-latex-manuscript-format-converter) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-latex-manuscript-format-converter` Converts existing manuscript content into LaTeX format aligned with a target journal, conference, or template while preserving manuscript meaning and structural integrity. - [Cover Letter Drafter](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-cover-letter-drafter) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-cover-letter-drafter` Drafts 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]". - [Methods Section Writer](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-methods-section-writer) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-methods-section-writer` Turns 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 sect… - [Reporting Guideline Compliance Checker](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-reporting-guideline-compliance-checker) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-reporting-guideline-compliance-checker` Checks biomedical manuscripts against reporting guidelines such as CONSORT, STROBE, PRISMA, and TRIPOD to identify missing or weak reporting elements before submission or revision. - [Immune Pathway Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-immune-pathway-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-immune-pathway-analysis` Run 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. - [Arxiv Preflight](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-arxiv-preflight) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-arxiv-preflight` Run 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… - [Cibersort Immune Infiltration Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-cibersort-immune-infiltration-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-cibersort-immune-infiltration-analysis` Use 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 CIBER… - [Estimate Immune Score Analysis](https://agentstack.voostack.com/l/skill-aipoch-medical-research-skills-estimate-immune-score-analysis) — Skill · Free · security-reviewed — `agentstack add skill-aipoch-medical-research-skills-estimate-immune-score-analysis` Use 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 a… --- Seller on AgentStack — the marketplace for AI agent skills and MCP servers. Every listing is security-reviewed. Install any with `agentstack add `.