Research skills

Browse reusable Agent Skills, each with a clear purpose and practical guidance.

similar-protein-retrieval

Retrieve proteins with similar structures, sequences, or from the same family. Use this skill when: (1) Finding similar proteins or homologs, (2) Searching for proteins with similar 3D structure, (3) Performing sequence similarity search, (4) Discovering proteins in the same family.

1.09k repo starsObserved in 1 repos
Research

single-cell-foundation-model-geneformer

Use this skill when a task involves Geneformer workflows, especially TranscriptomeTokenizer input preparation, tokenized `.dataset` generation, cell or gene classification with `Classifier`, embedding extraction with `EmbExtractor`, and in silico perturbation analysis with `InSilicoPerturber`.

1.09k repo starsObserved in 1 repos
Research

single-cell-multi-omics-analysis-scvi

Probabilistic deep learning framework for single-cell multi-omics data analysis. Use this skill when: (1) Analyzing single-cell RNA-seq data with batch correction, (2) Integrating multi-modal data (CITE-seq, ATAC-seq, multi-omics), (3) Performing cell type annotation with scANVI, (4) Spatial transcriptomics deconvolution with DestVI.

1.09k repo starsObserved in 1 repos
Research

single-cell-scrna-seq-analysis-scanpy

Complete single-cell RNA-seq analysis workflow built on Scanpy and AnnData. Use this skill when: (1) Loading diverse single-cell data formats (10X, h5ad, CSV), (2) Performing quality control and filtering, (3) Normalization, dimensionality reduction, and clustering, (4) Marker gene identification and cell type annotation.

1.09k repo starsObserved in 1 repos
Research

uniprot-query

Query UniProt database for protein sequences, metadata, and search by criteria. Use this skill when: (1) Looking up protein information by UniProt accession ID, (2) Searching proteins by gene name, organism, function, or disease, (3) Retrieving comprehensive protein metadata including domains, PTMs, and annotations.

1.09k repo starsObserved in 1 repos
Research

semtools

This skill provides semantic search capabilities using embedding-based similarity matching for code and text. Enables meaning-based search beyond keyword matching, with optional document parsing (PDF, DOCX, PPTX) support.

1.08k repo starsObserved in 2 repos
Research

news-paper-source

从 news/source-from-doc.md 和 news/source-daily.md 中识别论文与综述标题,在线搜索 arXiv、期刊或实验室页面等原文来源,使用 WebSearch/WebFetch 抓取可公开的摘要或介绍内容,结合本仓库已有整理生成结构化中文摘要 Markdown 文件到 news/papers/ 下,并可选在 news/source-daily.md 中追加「延伸阅读」链接。当用户在 Word/每日汇总里提到具体论文或综述,希望进一步追踪原文或为其建立笔记时使用。

1.08k repo starsObserved in 1 repos
Research

last30days-cn

Chinese-platform last-30-days research skill covering Weibo, Xiaohongshu, Bilibili, Zhihu, Douyin, WeChat, Baidu, and Toutiao. Includes Markdown, JSON, compact context, and Guizang-inspired Swiss/IKB HTML report output.

1.06k repo starsObserved in 1 repos
Research

arkon-query

Answer questions using the Arkon knowledge base. Searches wiki first, drills into raw sources only when needed. Supports quick, standard, and deep modes. Triggers on: what do we know about, find in KB, look up, query:, arkon query, search the wiki, tell me about, based on the KB.

1.06k repo starsObserved in 1 repos
Research

researching_gradle_internals

Searches and retrieves official Gradle User Guide, DSL Reference, and internal engine source code authoritatively; use for researching core Gradle features, verifying behavior, and deep-diving into internals. Do NOT use for project dependency source exploration (use `searching_dependency_sources`) or running builds.

1.06k repo starsObserved in 1 repos
Research