Skill UI

This advanced workflow enables users to perform deep analyses on large-scale people intelligence datasets. Users can build custom queries with multi-dimensional filters, run comparisons across different candidate pools (e.g., Q1 vs Q4), and aggregate skill density by geographical region. It is essential for talent acquisition teams needing to identify market trends and optimize hiring strategies beyond standard search functions.

This guide provides advanced patterns and best practices for optimizing Apache Spark jobs. It covers critical areas like effective partitioning, memory tuning, minimizing data skew, and optimizing different types of joins (broadcast, bucket). Use this when troubleshooting slow, large-scale data processing workflows or needing to scale Spark pipelines efficiently and reliably.

This advanced workflow orchestrates complex, multi-node GPU clusters on Vast.ai. It is designed for large-scale distributed machine learning training, automatically handling spot instance preemption and resuming jobs from checkpoints. Furthermore, it provides comprehensive cost analysis by tracking billing history, allowing users to optimize GPU spending and manage cluster teardown efficiently.

Arboreto is a powerful Python library designed to infer Gene Regulatory Networks (GRNs) from various gene expression datasets, including bulk and single-cell RNA-seq. It employs scalable algorithms like GRNBoost2 and GENIE3 to identify critical transcription factor-target gene relationships. Featuring support for Dask distributed computing, Arboreto is optimized for large-scale, high-throughput transcriptomic analysis.

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.

This skill proactively detects and reports comprehensive system resources, including CPU cores, GPU types (NVIDIA, AMD, Apple Silicon), available memory, and disk space. It generates a detailed JSON report with strategic, context-aware recommendations for optimizing scientific computing workflows, such as recommending parallel processing libraries (Dask, joblib), out-of-core methods (Zarr), or appropriate GPU acceleration backends (Metal, ROCm). Use this before any large-scale data analysis, model training, or computationally intensive simulation to make informed architectural decisions.

Latch is a robust Python framework designed for building, deploying, and managing complex, scalable bioinformatics workflows as serverless pipelines. It supports integrating multiple analysis tools (like Nextflow/Snakemake) and handles cloud data management (LatchFile/LatchDir) and detailed resource configuration (GPU, CPU, memory). Ideal for running large-scale analyses such as RNA-seq, AlphaFold, and single-cell analysis in a reproducible, production-ready environment.

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.

PathML is a comprehensive Python framework designed for computational pathology workflows. It supports end-to-end analysis of Whole Slide Images (WSI), including loading 160+ proprietary formats, performing advanced stain normalization and tissue segmentation, constructing spatial cell graphs, and training deep learning models (e.g., HoVer-Net) for multiplex immunofluorescence and spatial proteomics. Ideal for large-scale biomedical image analysis.

This comprehensive skill provides a standardized pipeline for reconstructing the evolutionary history of biological sequences (genes, proteins, genomes). It guides users through essential steps, including multiple sequence alignment using MAFFT, maximum likelihood tree inference with IQ-TREE 2, and visualization with ETE3. Ideal for research in viral phylodynamics, molecular clock studies, and large-scale comparative genomics.

A high-performance library built on Polars for advanced genomic interval operations and bioinformatics file I/O. It provides robust support for core interval arithmetic (overlap, merge, complement) and reading/writing major formats like VCF, BAM, BED, and GFF. Features include out-of-core streaming, cloud-native I/O (S3, GCS, Azure), and a powerful SQL interface, making it ideal for large-scale genomic research.

Zarr is a robust Python library designed for storing massive N-dimensional arrays. It supports efficient chunking, compression, and parallel I/O, making it ideal for large-scale scientific computing pipelines. Seamlessly integrates with NumPy, Dask, and Xarray, and supports cloud storage backends like S3 and GCS via fsspec, ensuring high performance in cloud-native environments.