Results for “pysam”

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

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

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

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

Kit de ferramentas para arquivos genômicos. Leia/escreva alinhamentos SAM/BAM/CRAM, variantes VCF/BCF, sequências FASTA/FASTQ, extraia regiões, calcule cobertura, para pipelines de processamento de dados NGS.

Bayesian modeling with PyMC. Build hierarchical models, MCMC (NUTS), variational inference, LOO/WAIC comparison, posterior checks, for probabilistic programming and inference.

pytest - Python's most powerful testing framework with fixtures, parametrization, plugins, and framework integration for FastAPI, Django, Flask

Run computational fluid dynamics simulations using Python, including Navier-Stokes equations, shallow water, and stratified flows with pseudospectral methods and HPC support.

Read, write, and modify DICOM medical imaging files, including pixel data extraction, anonymization, format conversion, and compression handling.

Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. Use this skill when reading, writing, or modifying medical imaging data in DICOM format, extracting pixel data from medical images (CT, MRI, X-ray, ultrasound), anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM images to other formats, handling compressed DICOM data, or processing medical imaging datasets. Applies to tasks involving medical image analysis, PACS systems, radiology workflows, and healthcare imaging applications.

Biblioteca Python para trabalhar com arquivos DICOM (Digital Imaging and Communications in Medicine). Use essa skill ao ler, escrever ou modificar dados de imagens médicas em formato DICOM, extrair dados de pixel de imagens médicas (TC, RM, Raio-X, ultrassom), anonimizar arquivos DICOM, trabalhar com metadados e tags DICOM, converter imagens DICOM para outros formatos, processar dados DICOM comprimidos ou processar conjuntos de dados de imagens médicas. Aplica-se a tarefas envolvendo análise de imagens médicas, sistemas PACS, fluxos de trabalho de radiologia e aplicações de imagem médica.

Bayesian modeling with PyMC. Build hierarchical models, MCMC (NUTS), variational inference, LOO/WAIC comparison, posterior checks, for probabilistic programming and inference.

Read, write, and manipulate DICOM medical imaging files, including pixel data extraction, metadata editing, anonymization, format conversion, and compression handling.

Bayesian modeling with PyMC. Build hierarchical models, MCMC (NUTS), variational inference, LOO/WAIC comparison, posterior checks, for probabilistic programming and inference.

Pyright fast Python type checker from Microsoft with VS Code integration and strict type checking modes

Dense, machine-readable API reference for PyFixest — high-dimensional fixed-effects OLS/WLS/IV and Poisson (feols, fepois, feglm), clustered/robust standard errors, R-style formula syntax, and post-estimation. Use when writing or debugging Python fixed-effects regressions with the pyfixest package.

pnpm package manager. Fast, disk-efficient with excellent monorepo support. Use when managing dependencies or setting up monorepos. USE WHEN: user mentions "pnpm", "pnpm workspace", "pnpm-workspace.yaml", asks about "pnpm commands", "pnpm install", "workspace protocol" DO NOT USE FOR: npm (use standard npm commands), yarn (use yarn commands), bun package manager

Build, fit, validate, and compare Bayesian models using PyMC's modern API, including hierarchical models, MCMC sampling, variational inference, posterior predictive checks, and model comparison.

Build, fit, validate, and compare Bayesian models using PyMC, including hierarchical models, MCMC sampling, variational inference, posterior predictive checks, and model comparison.

Modelagem Bayesiana com PyMC. Construa modelos hierárquicos, MCMC (NUTS), inferência variacional, comparação LOO/WAIC, verificações posteriores, para programação probabilística e inferência.

Use for writing, reviewing, debugging, testing, or diagnosing Python Bayesian models built directly with PyMC, including Model, coords/dims, Data, random variables, potentials, posterior sampling, prior/posterior predictive checks, and InferenceData output. Trigger on model geometry, shape errors, divergences, sampler choice, mutable prediction data, and probabilistic validation. Do not use for Bambi formula models, NumPyro/JAX programs, ArviZ-only analysis of existing draws, deterministic optimization, or general statistics without PyMC code.

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.

Implement Python database access with parameterized SQL, transaction scope, connection helpers, and repository seams. Use when editing Postgres queries, repositories, transactions, pooling, or persistence boundaries in Python.

Write, review, debug, test, and optimize Python Polars code with version-grounded object types, schemas, and execution boundaries.

Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. Use this skill when reading, writing, or modifying medical imaging data in DICOM format, extracting pixel data from medical images (CT, MRI, X-ray, ultrasound), anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM images to other formats, handling compressed DICOM data, or processing medical imaging datasets. Applies to tasks involving medical image analysis, PACS systems, radiology workflows, and healthcare imaging applications.

Write, review, debug, test, or optimize Python code using PyArrow arrays, schemas, tables, compute kernels, datasets, Parquet, and Arrow IPC.

Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. Use this skill when reading, writing, or modifying medical imaging data in DICOM format, extracting pixel data from medical images (CT, MRI, X-ray, ultrasound), anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM images to other formats, handling compressed DICOM data, or processing medical imaging datasets. Applies to tasks involving medical image analysis, PACS systems, radiology workflows, and healthcare imaging applications.

Expert Australian Information Security Manual (ISM) advisor for government entities and their supply chains. Use for ISM control selection, gap analysis, system authorisation, IRAP assessment preparation, security documentation, and ASD compliance. Triggers on: ISM controls, ASD compliance, IRAP assessment, PROTECTED system scoping, Essential Eight vs ISM, system authorisation, NC/OS/ PROTECTED/SECRET/TOP SECRET classification markings, security objectives, ISM guidelines or chapters, control applicability markings, cybersecurity documentation for Australian government, and any question about the ASD Information Security Manual framework or Australian government cybersecurity obligations.

Spectral similarity and compound identification for metabolomics. Use for comparing mass spectra, computing similarity scores (cosine, modified cosine), and identifying unknown compounds from spectral libraries. Best for metabolite identification, spectral matching, library searching. For full LC-MS/MS proteomics pipelines use pyopenms.

Prisma ORM expert for schema design, migrations, query optimization, relations modeling, and database operations. Use PROACTIVELY for Prisma schema issues, migration problems, query performance, relation design, or database connection issues.

Builds an external attack surface management (EASM) program using Shodan, Censys, and ProjectDiscovery tools for asset discovery, subdomain enumeration, service fingerprinting, and exposure scoring.

Crea y gestiona entornos Python reproducibles con venv, pip, Poetry o Conda, aislando dependencias y configurando variables de entorno para evitar conflictos.

Statsmodels is Python's premier library for statistical modeling, providing tools for estimation, inference, and diagnostics across a wide range of statistical methods.