aipoch/pptx-skill

Create, edit, and extract content from PowerPoint (.pptx) files; use when you need to generate slides programmatically, update existing decks, or export slide previews. --- 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 \"preflight\". Also trigger on phrases like \"check my paper before arXiv\", \"verify my references\", \"scan for AI artifacts\", \"scan for LLM residue\", \"is my submission ready\", or \"review .tex/.bib before submit\". --- Complete workflow for generating academic research posters from PDF literature; use when you need to extract paper content from PDFs and produce a LaTeX-based poster (beamerposter/tikzposter/baposter) with mandatory figure generation and a final rendered HTML deliverable. --- 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 should I address the limitation of", "reviewer said my sample is too small", or "help me word this limitation". --- Analyze data with `adme-property-predictor` using a reproducible workflow, explicit validation, and structured outputs for review-ready interpretation. --- Generate structured academic CVs from free-form Chinese/English text and export to Word (.docx). Use this skill when you are asked to organize, generate, or optimize an academic CV (e.g., publications/projects/awards) into a consistent, formatted document with uniform-colored section headers and optional bilingual output. --- Automates Risk of Bias 2 (ROB2) assessment for RCT papers by analyzing text against specific domains and synthesizing a report. Use when you need to assess the quality of a clinical trial paper or evaluate risk of bias. --- Designs primary aims, secondary aims, and testable hypotheses from broad biomedical research ideas. Use this skill when a user needs to convert a loose study idea into a tighter protocol-framing structure with clear aim hierarchy, hypothesis discipline, and separation between hypothesis-driven and exploratory components. Always keep aims answerable, non-overlapping, and aligned to the intended evidence type and study scope. --- Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content. Use when a user needs 3-5 concise, evidence-grounded highlight bullets for a research paper, review, meta-analysis, case report, or bioinformatics manuscript. --- Generates complete FAERS pharmacovigilance study designs for multi-drug or class-level safety comparison inside one predefined SOC or AE family using active comparators, disproportionality analysis, subgroup characterization, and reviewer-facing evidence control. --- Design and simulate adaptive clinical trials with interim analyses, decision rules, and operating-characteristic summaries; use when planning adaptive designs or comparing stopping, enrichment, or sample-size re-estimation strategies. --- 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. --- Builds background-gap-objective logic for biomedical manuscript introductions with clear study positioning and disciplined narrative structure. --- 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. --- Build a ceRNA regulatory network from a key gene list using miRNA-mRNA and miRNA-lncRNA reference tables, with CSV exports and PDF visualization. The ModelScope package requires reference data obtained from the canonical source repository. --- 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", "I need a conference abstract", or "cut my abstract to fit the word limit". --- 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 CIBERSORT web service. --- Checks biomedical manuscripts against reporting guidelines such as CONSORT, STROBE, PRISMA, and TRIPOD to identify missing or weak reporting elements before submission or revision. --- Checks consistency across title, abstract, methods, results, figures, tables, and supplements to identify internal contradictions and version drift in biomedical manuscripts. --- Clinical Research Bias Assessment - Case-Control Study (NOS) v2.3.0. Use when you need to assess the bias of a case-control study using the Newcastle-Ottawa Scale (NOS) criteria, or when evaluating the quality of a medical paper. --- Checks whether manuscript references are accurately matched to claims, appropriately scoped, and not overextended, misquoted, or second-hand cited. --- Converts existing manuscript content into LaTeX format aligned with a target journal, conference, or template while preserving manuscript meaning and structural integrity. --- 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 I compare to prior studies", "write the limitations paragraph", or "draft a discussion for my paper". --- 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]". --- Calibrates manuscript claim strength so wording matches the actual evidence level, study design, and validation status. --- Generate photorealistic rendering scripts for PyMOL and UCSF ChimeraX. --- 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. --- 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/edgeR, or non-expression omics data. --- 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. --- Structures research progress into focused and actionable slides for lab meetings or project reviews without inventing missing content. --- 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 data, or non-expression tables. --- 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 analysis, differential expression, clinical diagnosis. --- 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. --- 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 needs a legend", "write Figure 1 legend", or "what should a figure legend include". --- 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. --- 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. --- 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". --- 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. --- Assists researchers in generating INPLASY registration content for meta-analyses from a title and optional protocol. Use when the user wants to draft a INPLASY registration form. --- 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", "is this a good fit for [journal]", or "I need a journal with IF around X". --- Use when training a LightGBM model on tabular data in R and returning model metrics, feature importance ranking tables, and feature importance plots. --- >- --- Perform pre-experiment calculations and generate step-by-step preparation protocols for dilutions, solution preparation, dissolution, and % concentrations when planning formulations and lab prep workflows. --- 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 section", "how to report my statistics", "what do I need to include in methods for [study type]", or "make my methods CONSORT-compliant". --- Improves medical English precision without changing the underlying facts, evidence boundaries, or intended scientific meaning. --- Converts biomedical table content into clear manuscript or presentation narrative by prioritizing meaningful patterns, contrasts, and interpretation boundaries rather than restating every number. --- Detects content similarity, verifies standardized citations and abbreviations, and flags potential academic integrity risks; use it before submission, during academic writing QA, or for compliance reviews. --- Optimizes manuscript titles and abstracts for information density, factual accuracy, and submission fit in biomedical research writing. --- 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, plan paper revision sprints, or when user types /ps or /papersprint. --- 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 my poster". --- Analyzes clinical diagnostic accuracy studies for bias using the QUADAS-2 tool. Use when Claude needs to assess the quality, risk of bias, or applicability of diagnostic accuracy studies (e.g., "Assess this paper using QUADAS-2"). --- Analyzes clinical diagnostic accuracy studies for bias using the QUADAS-2 tool. Use when Claude needs to assess the quality, risk of bias, or applicability of diagnostic accuracy studies (e.g., \"Assess this paper using QUADAS-2\"). --- 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. --- Organizes biomedical figures, analyses, and result blocks into a clear Results section structure with disciplined narrative ordering and evidence-aware presentation. --- Refines long medical academic texts into SCI-style unstructured Chinese and English abstracts; use when you need to condense drafts/reports/summaries into bilingual abstracts and generate Summary_Report.md. --- Builds prioritized manuscript revision plans for major or minor revisions by separating comments that require experiments, analyses, clarification, restructuring, or wording changes. --- PyTorch-native Graph Neural Network framework for molecules and proteins. Suitable for building custom GNN architectures for drug discovery, protein modeling, or knowledge graph reasoning. Best for custom model development, protein property prediction, and retrosynthesis. If you need pretrained models and diverse feature extractors, use deepchem; if you need benchmark datasets, use pytdc. --- Intelligent medical abbreviation disambiguation tool that resolves ambiguous acronyms using clinical context, specialty-specific knowledge, and document-level semantic 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. --- Transform lengthy academic papers into concise, structured 250-word abstracts.