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Skills في هذا المستودع
جمع SkillsMP عدد ٢٤٠ من skills من AlterLab-IEU/AlterLab-Academic-Skills. افتح أي skill لمراجعة مصدره وتفاصيله.
AlterLab-IEU/AlterLab-Academic-Skillsعرض ٤٠ من أصل ٢٤٠ skills مجمعة.
Featurizes molecules for machine learning with molfeat (100+ featurizers) — ECFP/MACCS/MAP4 fingerprints, RDKit and Mordred physicochemical descriptors, and pretrained embeddings (ChemBERTa, ChemGPT, GIN) exposed as scikit-learn transformers that convert…
لغة النص الأصلي: الإنجليزية
Provides the RDKit cheminformatics toolkit for low-level, fine-grained molecular primitives — SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure/SMARTS search, 2D/3D coordinate generation, similarity, and reaction handling. Use when…
لغة النص الأصلي: الإنجليزية
Builds PyTorch-native graph neural networks with TorchDrug for molecules and proteins, exposing custom GNN architectures, task/dataset abstractions, molecular generation, retrosynthesis planning, and knowledge-graph reasoning. Use when developing custom graph…
لغة النص الأصلي: الإنجليزية
Verifies that every entry in a bibliography ACTUALLY EXISTS by cross-checking it against four keyless public scholarly APIs (Crossref, OpenAlex, Semantic Scholar, arXiv) with a polite mailto identifier, resolving DOI/arXiv IDs, fuzzy-matching title and…
لغة النص الأصلي: الإنجليزية
Runs a 13-agent deep research pipeline for rigorous academic work on any topic across 7 modes (full research, quick brief, paper review, lit-review, fact-check, Socratic guided research dialogue, and systematic review with optional meta-analysis), covering…
لغة النص الأصلي: الإنجليزية
Drafts and revises academic papers through a 12-agent pipeline with hardened LaTeX output (apa7 document class, justified text, table column-width formula, centered bilingual abstracts, standardized font stack, PDF compiled from LaTeX), supporting IMRaD,…
لغة النص الأصلي: الإنجليزية
Orchestrates the full academic research pipeline (research, write, integrity check, review, revise, re-review, re-revise, final integrity check, finalize), coordinating alterlab-deep-research, alterlab-paper-writer, and alterlab-paper-reviewer into a seamless…
لغة النص الأصلي: الإنجليزية
Designs courses and teaching materials using backward design (Wiggins & McTighe), constructive alignment (Biggs), and Bloom's taxonomy alignment, generating rubrics, formative and summative assessments, syllabi, lesson plans, inclusive-pedagogy guidance, and…
لغة النص الأصلي: الإنجليزية
Supervises theses and dissertations end to end — structure guidance from proposal through defense, chapter-by-chapter writing support (introduction, literature review, methodology, results, discussion), supervision strategies, committee management, defense…
لغة النص الأصلي: الإنجليزية
Scales reinforcement learning with PufferLib — high-throughput parallel training (PuffeRL), vectorized environments, and native multi-agent systems achieving 2-10x speedups over standard implementations. Use when scaling RL to millions of steps per second,…
لغة النص الأصلي: الإنجليزية
Trains single-agent reinforcement learning agents with Stable-Baselines3 — PPO, SAC, DQN, TD3, DDPG, and A2C behind a scikit-learn-like API. Use for standard single-agent RL experiments, quick prototyping, well-documented algorithm implementations on…
لغة النص الأصلي: الإنجليزية
Access the AlphaFold DB of 200M+ AI-PREDICTED protein structures — retrieve models by UniProt accession, download PDB/mmCIF files, and analyze prediction confidence metrics (pLDDT, PAE). Use when a UniProt ID needs a computationally predicted 3D structure or…
لغة النص الأصلي: الإنجليزية
Query BindingDB for measured protein-ligand binding affinities (Ki, Kd, IC50, EC50) via its keyless REST API or the full TSV download, searching by target (UniProt ID), compound (SMILES), or pathogen. Use when looking up experimental binding constants,…
لغة النص الأصلي: الإنجليزية
Query ChEMBL via the chembl_webresource_client Python client for curated bioactive molecules and drug-like compound libraries at scale — search compounds by structure or physicochemical properties, retrieve bioactivity measurements (IC50, Ki, EC50), and find…
لغة النص الأصلي: الإنجليزية
Provide direct REST API access to KEGG (academic use only) for pathway analysis, gene-to-pathway and compound-to-pathway mapping, metabolic reactions, KEGG Orthology (KO), drug-drug interactions, and ID conversion. Use when querying KEGG pathways, mapping…
لغة النص الأصلي: الإنجليزية
Access the RCSB Protein Data Bank (PDB) for EXPERIMENTALLY determined 3D structures (X-ray, cryo-EM, NMR) of proteins and nucleic acids — searching by text, sequence, or structure similarity and downloading coordinates in PDB/mmCIF format with metadata. Use…
لغة النص الأصلي: الإنجليزية
Query the STRING API for protein-protein interactions (59M proteins, 20B interactions across 5000+ species), building interaction networks, discovering functional partners, and running GO/KEGG/Pfam enrichment on protein lists. Use when constructing a…
لغة النص الأصلي: الإنجليزية
Provide direct REST API access to UniProt (Swiss-Prot/TrEMBL) for protein sequence searches, FASTA retrieval, functional annotations (GO terms, domains), and cross-database ID mapping. Use when looking up a protein entry, fetching a protein FASTA sequence, or…
لغة النص الأصلي: الإنجليزية
Builds, simulates, and runs quantum circuits with Cirq, Google Quantum AI's framework for NISQ hardware, noise-aware low-level circuit design, and noise characterization. Use when targeting Google Quantum AI processors (Sycamore/Weber), designing noise-aware…
لغة النص الأصلي: الإنجليزية
Covers geospatial science across remote sensing, GIS, spatial analysis, and machine learning for earth observation — satellite imagery processing (Sentinel, Landsat, MODIS, SAR, hyperspectral), raster and DEM operations, spectral indices (NDVI/EVI/NDWI),…
لغة النص الأصلي: الإنجليزية
Runs automated LLM-driven hypothesis generation and testing on tabular datasets with HypoGeniC, combining literature insights with data-driven testing. Use when systematically exploring hypotheses about patterns in empirical data (for example deception…
لغة النص الأصلي: الإنجليزية
Trains and differentiates quantum circuits with PennyLane, a hardware-agnostic quantum machine-learning framework with automatic differentiation and PyTorch/JAX/TensorFlow integration. Use when training quantum circuits via gradients (parameter-shift,…
لغة النص الأصلي: الإنجليزية
Builds, transpiles, and runs quantum circuits with Qiskit, IBM's quantum computing framework, including Qiskit Runtime primitives (Sampler/Estimator), circuit transpilation, and error mitigation on IBM Quantum hardware. Use when targeting IBM Quantum…
لغة النص الأصلي: الإنجليزية
Writes liquid-handling protocols for Opentrons OT-2 and Flex robots using the official Opentrons Protocol API v2, with full access to v2 features for production-grade, officially compatible protocols. Use when authoring or running protocols specifically for…
لغة النص الأصلي: الإنجليزية
Mixed methods research design and integration strategies for combining qualitative and quantitative approaches. Use when planning convergent, explanatory sequential, exploratory sequential, embedded, transformative, or multiphase designs; when integrating…
لغة النص الأصلي: الإنجليزية
Guidance for open science practices — preregistration (OSF Registries, AsPredicted, PROSPERO, ClinicalTrials.gov), open data and FAIR principles, repository choice (Zenodo, Dryad, Figshare), open access routes (Green/Gold/Diamond), Creative Commons licensing,…
لغة النص الأصلي: الإنجليزية
Search the web, run deep research, and extract content from known URLs via the Parallel Web Systems Chat API (OpenAI-compatible) and Extract API, returning synthesized summaries with inline citations. Use when running general web searches,…
لغة النص الأصلي: الإنجليزية
Comprehensive qualitative research methods assistant supporting thematic analysis (Braun & Clarke), grounded theory (Strauss & Corbin; Charmaz), interpretative phenomenological analysis (IPA), content analysis, narrative inquiry, ethnography, case study…
لغة النص الأصلي: الإنجليزية
International research ethics and compliance assistant supporting IRB/ethics board applications, informed consent drafting, data management plans, Belmont Report principles, Declaration of Helsinki (2024), GDPR compliance for research, HIPAA considerations,…
لغة النص الأصلي: الإنجليزية
Look up current research and scholarly papers by auto-routing each query to the best backend — the Parallel Web Systems Chat API (general research) or Perplexity sonar-pro-search (academic paper searches) — and save every result with citations to sources/.…
لغة النص الأصلي: الإنجليزية
Evaluate scientific claims and evidence quality using evidence grading frameworks (GRADE, Cochrane Risk of Bias), assessing experimental design validity and identifying biases, confounders, statistical pitfalls, and logical fallacies. Use when judging…
لغة النص الأصلي: الإنجليزية
Comprehensive survey and instrument design assistant supporting questionnaire construction, Likert scale design, question types (open/closed/matrix), response bias mitigation, sampling strategies (probability/non-probability), pilot testing, instrument…
لغة النص الأصلي: الإنجليزية
Builds plots with the matplotlib Python library (pyplot and the object-oriented Figure/Axes API) for full low-level customization, exporting to PNG/PDF/SVG. Use when fine-grained control over individual plot elements is needed — custom…
لغة النص الأصلي: الإنجليزية
Orchestrates matplotlib, seaborn, and plotly with opinionated publication styles to produce journal-ready figures. Use when preparing journal-submission figures that need multi-panel layouts with bold panel labels, statistical significance annotations, error…
لغة النص الأصلي: الإنجليزية
Prepares academic career documents and professional-development materials for faculty and researchers. Use when drafting academic CVs, research statements, teaching philosophies, diversity statements, faculty-position cover letters, tenure dossiers, promotion…
لغة النص الأصلي: الإنجليزية
Simulates a full multi-reviewer journal review PANEL — 5 personas (Editor-in-Chief + 3 peer reviewers + a Devil's Advocate) debate a manuscript and produce a consensus Editorial Decision (accept/minor/major/reject) plus a prioritized Revision Roadmap. Modes:…
لغة النص الأصلي: الإنجليزية
Query ClinicalTrials.gov via its API v2 to search trials by condition, drug, location, recruitment status, or phase and retrieve trial details by NCT ID. Use when finding interventional or observational studies, checking trial status and eligibility for…
لغة النص الأصلي: الإنجليزية
Run Open Notebook, a self-hosted open-source alternative to Google NotebookLM with a full REST API, for AI-powered research and document analysis. Use when organizing research materials into notebooks, ingesting diverse content sources (PDFs, videos, audio,…
لغة النص الأصلي: الإنجليزية
Integrates the Benchling R&D platform via its REST API and SDK — access the registry (DNA, proteins), inventory, ELN entries and workflows, build Benchling Apps, and query the Benchling Data Warehouse. Use when automating Benchling lab data management,…
لغة النص الأصلي: الإنجليزية
Develops and runs genomics pipelines on the DNAnexus cloud platform using the dxpy Python SDK and dx CLI — build apps/applets, write dxapp.json, upload/download data, and execute jobs/workflows over FASTQ/BAM/VCF files. Use when building or running a DNAnexus…
لغة النص الأصلي: الإنجليزية