Results for “htslib”

Process whole slide images for digital pathology: detect tissue, extract tiles, and prepare datasets for deep learning pipelines.

Extract and preprocess tiles from whole-slide images (WSI) with histolab — OpenSlide-backed slide loading, tissue detection and masks, Random/Grid/Score tile extraction, and image/morphological filters for H&E preprocessing. Use when the user needs lightweight WSI slide preprocessing — building tile datasets for ML training, tissue segmentation, or quick tile-based inspection of histopathology slides. For end-to-end computational-pathology, deep-learning model training, nucleus segmentation, or multiplexed/spatial-proteomics (CODEX, Vectra) pipelines prefer alterlab-pathml instead. Part of the AlterLab Academic Skills suite.

Lightweight WSI tile extraction and preprocessing. Use for basic slide processing tissue detection, tile extraction, stain normalization for H&E images. Best for simple pipelines, dataset preparation, quick tile-based analysis. For advanced spatial proteomics, multiplexed imaging, or deep learning pipelines use pathml.

Train or fine-tune language and vision models using TRL or Unsloth on Hugging Face Jobs cloud infrastructure, with support for SFT, DPO, GRPO, and reward modeling, plus GGUF conversion for local deployment.

Resolves, generates, and operates on media assets (audio, images, icons, logos, voice, color grades, LUTs) for HyperFrames projects, using a local cache and the HeyGen CLI for free-usage catalog search and TTS.

Manage Hugging Face Hub resources via the `hf` CLI: download and upload models, datasets, and spaces; manage buckets, cache, collections, discussions, and inference endpoints; run SQL queries on datasets.

Persistent task ledger for agent coordination. Plan multi-step work, checkpoint progress across session boundaries, and coordinate across multiple agents with project pool routing.

Operate Hugging Face Hub repositories, models, datasets, and Spaces via the hf CLI, including downloads, uploads, authentication, and compute jobs.

Syncs key-value preferences and state across multiple agents using a shared TiDB Zero database, with optional auto-provisioning of a free ephemeral database.

HuggingFace hf CLI: search/download/upload models, datasets.

Manage Hugging Face dataset Git repositories with Git Xet/LFS-compatible tracking, including setup, safe snapshot commits, push verification, binary rejection recovery, and README track-rule maintenance.

HuggingFace hf CLI: search/download/upload models, datasets.

Search and download specific files/folders from GitHub repositories directly from terminal using ghgrab, without full clone. Covers install, interactive browsing, release asset download, and automation-safe usage patterns.

Evaluates LLMs across 60+ academic benchmarks (MMLU, HumanEval, GSM8K, TruthfulQA, HellaSwag). Use when benchmarking model quality, comparing models, reporting academic results, or tracking training progress. Industry standard used by EleutherAI, HuggingFace, and major labs. Supports HuggingFace, vLLM, APIs.

Pretrains large language models at scale using PyTorch-native torchtitan with 4D parallelism, Float8, and distributed checkpointing.