Results for “pypff”

Generates type-safe, async-first Python 3.11+ code with full type annotations, mypy strict mode, pytest test suites, and validation via black and ruff.

Configures Python projects with modern tooling (uv, ruff, ty) for new projects, scripts, or migrations from legacy tools.

High-level PyTorch framework with Trainer class, automatic distributed training (DDP/FSDP/DeepSpeed), callbacks system, and minimal boilerplate. Scales from laptop to supercomputer with same code. Use when you want clean training loops with built-in best practices.

Creates, reviews, debugs, and modernizes Python project structure with deterministic tooling including pyproject.toml, uv, Ruff, Pyright, and pytest.

Python development best practices including PEP 8 style guidelines, type hints, docstring conventions, and common patterns. Use when writing or modifying Python code.

Use when implementing python functionality with production-grade patterns and safeguards.

Python package reorganization with pyproject.toml inside package directory

Analyze proteomics and metabolomics mass spectrometry data with PyOpenMS: read/write MS file formats, process spectra, detect and quantify features, identify peptides and proteins, and run end-to-end LC-MS/MS pipelines using ready-to-run scripts.

Analyze network packet captures (PCAP/PCAPNG) using Wireshark, tshark, tcpdump, and Python to reconstruct communications, extract files, and identify malicious traffic.

Read, write, and manipulate genomic datasets including SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences using a Pythonic interface to htslib.

Lint and format Python with Ruff. Use when a user asks to set up Python linting, replace flake8/black/isort, configure code quality rules, or speed up Python code formatting.

Apply comprehensive Python testing strategies using pytest, including TDD methodology, fixtures, mocking, parametrization, and coverage requirements.

Debug Python: pdb REPL + debugpy remote (DAP).

Solves single- and multi-objective optimization problems with NSGA-II/III, MOEA/D, and other evolutionary algorithms, including constraint handling, Pareto front analysis, and benchmark problems.

Enforces principal-engineer-level Python code quality: formatting, type safety, idiomatic patterns, class and function design, and anti-pattern prevention.

Python interface to OpenMS for mass spectrometry data analysis. Use for LC-MS/MS proteomics and metabolomics workflows including file handling (mzML, mzXML, mzTab, FASTA, pepXML, protXML, mzIdentML), signal processing, feature detection, peptide identification, and quantitative analysis. Apply when working with mass spectrometry data, analyzing proteomics experiments, or processing metabolomics datasets.

Organizes PyTorch code with a Trainer class, automatic distributed training (DDP/FSDP/DeepSpeed), callbacks, and minimal boilerplate. Scales from laptop to supercomputer with the same code.

Master Python 3.12+ with modern features, async programming, performance optimization, and production-ready practices. Expert in the latest Python ecosystem including uv, ruff, pydantic, and FastAPI.

PyTorch, TensorFlow, neural networks, CNNs, transformers, and deep learning for production

Multi-objective optimization framework. NSGA-II, NSGA-III, MOEA/D, Pareto fronts, constraint handling, benchmarks (ZDT, DTLZ), for engineering design and optimization problems.

High-level PyTorch framework with Trainer class, automatic distributed training (DDP/FSDP/DeepSpeed), callbacks system, and minimal boilerplate. Scales from laptop to supercomputer with same code. Use when you want clean training loops with built-in best practices.

Build complete mass-spectrometry workflows with pyOpenMS — feature detection, peptide identification, protein quantification, and full LC-MS/MS pipelines across many MS file formats (mzML, mzXML) and algorithms. Use for comprehensive proteomics and MS data processing — for simple spectral comparison and metabolite identification use matchms. Part of the AlterLab Academic Skills suite.

Applies senior Python rules for typing, async, APIs, persistence, tests, packaging, and architecture.

Python language (3.10-3.14). Covers typing, async, and modern patterns. Use when writing Python applications. USE WHEN: user mentions "python", "type hints", "dataclasses", "async/await", asks about "asyncio", "context managers", "match statement", "walrus operator", "PEP 695", "type parameter", "generic" DO NOT USE FOR: FastAPI framework - use `backend-fastapi` skill instead DO NOT USE FOR: Django framework - use Django-specific skill DO NOT USE FOR: Package management - use `python-packaging` skill DO NOT USE FOR: Linting/type checking config - use `python-quality` skill

High-performance RLHF framework with Ray+vLLM acceleration. Use for PPO, GRPO, RLOO, DPO training of large models (7B-70B+). Built on Ray, vLLM, ZeRO-3. 2× faster than DeepSpeedChat with distributed architecture and GPU resource sharing.

Configure Python tooling, dependency surfaces, static analysis, and verification gates. Use when editing `pyproject.toml`, `requirements.txt`, `pytest.ini`, `ruff`, `pyright`, CI, or Python release checks.

Provides a quick reference for fp-ts pipe and flow functions to chain functions, compose operations, and build data pipelines.

Organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, implement data pipelines, callbacks, logging (W&B, TensorBoard, MLflow), and distributed training (DDP, FSDP, DeepSpeed) for scalable neural network training.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

Create distributable Python packages with proper project structure, setup.py/pyproject.toml, and publishing to PyPI. Use when packaging Python libraries, creating CLI tools, or distributing Python code.

Configure and maintain Python projects, dependencies, packaging, environments, linting, formatting, type checking, testing, builds, and publishing. Use for pyproject.toml, an existing repository toolchain, or repository-level Python tooling work, not for a standalone script.