Skill UI

A comprehensive guide for configuring and troubleshooting Jenkins when embedded within KubeSphere DevOps. Learn how to manage Jenkins via Configuration as Code (CasC), integrate advanced authentication methods like LDAP and OIDC, customize agent images, and connect to external sources such as GitLab. Covers everything from initial access to backup and recovery.

Biopython is a robust, comprehensive toolkit for computational molecular biology written in Python. It enables users to manipulate biological sequences (DNA, RNA, protein), parse standard formats (FASTA, GenBank, PDB, etc.), and programmatically access major bioinformatics databases like NCBI via Entrez. This skill is ideal for developing complex bioinformatics pipelines, including sequence alignment, structural analysis, and phylogenetic tree construction.

Provides programmatic access to massive, versioned public single-cell and spatial transcriptomics datasets from CZ CELLxGENE. This skill allows users to efficiently query specific subsets of cell metadata, gene expression matrices, embeddings, and summary statistics across various organisms, tissues, and diseases. It is ideal for large-scale, memory-efficient biological research and model training without full dataset downloads.

Datamol provides a simplified, Pythonic abstraction layer over RDKit, making complex molecular operations accessible for chemical data science. It supports core functionalities including SMILES parsing, structure standardization, calculation of molecular descriptors (e.g., LogP, MW), 3D conformer generation, and efficient parallel batch processing. It is ideal for streamlining molecular data handling in drug discovery and chemical research pipelines.

This skill provides programmatic access to the Cancer Dependency Map (DepMap), a comprehensive resource characterizing genetic dependencies in cancer cell lines. Use it to identify genes essential for specific cancer types, discover synthetic lethal interactions, and validate potential oncology drug targets using CRISPR and RNAi data.

gget is a comprehensive command-line tool and Python package offering unified access to over 20 genomic databases. It facilitates quick lookups for gene information, sequence analysis (BLAST), protein structures, and expression data, supporting both interactive CLI use and advanced programmatic Python workflows for biological research.

Ginkgo Cloud Lab provides remote access to an advanced autonomous lab infrastructure, enabling users to submit and manage complex molecular biology protocols. It supports diverse applications including protein expression and purification (cell-free, E. coli, Pichia), quantitative assays (HiBiT, A280, LabChip), nucleic acid synthesis (IVT mRNA/circRNA), and characterization techniques (Thermal Shift, Echo-MS, SPR). The platform features an AI agent (EstiMate) for custom workflow feasibility and pricing.

Modal is a powerful serverless cloud platform designed specifically for running AI and Machine Learning workloads. It allows users to deploy, serve, and scale complex models (like LLMs) without managing infrastructure. Key features include on-demand access to high-end GPUs (A100, H100), serverless function scaling, persistent storage, and the ability to define entire infrastructure using pure Python code, eliminating the need for separate YAML or Dockerfiles.

This skill provides a comprehensive Python API integration for the OMERO platform, an open-source solution for managing and analyzing large-scale microscopy datasets. Users can programmatically access images, retrieve structured data, analyze raw pixel data, manage complex annotations (ROIs), and execute batch processing workflows essential for high-content screening and advanced biological research.

Open Notebook is a self-hosted, open-source alternative to major AI research tools. It allows users to ingest diverse content—including PDFs, videos, and web pages—and organize them into private notebooks. Key features include context-aware AI chat, automated summarization, multi-speaker podcast generation, and full programmatic access via a comprehensive REST API. By running on your own infrastructure, it ensures complete data privacy and supports 16+ AI providers.

This skill provides programmatic access to the PrimeKG, a comprehensive knowledge graph integrating over 20 primary databases. It facilitates multiscale biological research by mapping complex relationships between genes, drugs, diseases, and phenotypes. Use it for drug repurposing, identifying novel disease targets, and analyzing molecular mechanisms across various biological scales.

The Hugging Face Transformers library is a comprehensive toolkit providing access to thousands of pre-trained models across diverse domains including Natural Language Processing (NLP), Computer Vision, Audio, and Multimodal tasks. It enables developers to easily load models, perform high-level inference (e.g., text generation, classification, QA), and fine-tune models on custom datasets using streamlined APIs like Pipelines and the Trainer class. Ideal for building advanced, state-of-the-art AI applications.