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Search Python , found 321 results

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Hardware Agnostic Lab Automation

K-Dense-AI/claude-scientific-skills

PyLabRobot is a Python SDK that controls liquid handlers, plate readers, pumps and other lab automation devices through one unified API, ideal for multi-vendor workflows, simulations, and reproducible protocols across platforms.

Materials Structure Toolkit

K-Dense-AI/claude-scientific-skills

Pymatgen is a Python toolkit for computational materials science that creates, manipulates, and analyzes crystal structures, converts among 100+ formats, computes phase diagrams, and accesses Materials Project data for high-throughput workflows.

Pymoo Multi Objective Optimizer

K-Dense-AI/claude-scientific-skills

Pymoo is a Python optimization toolkit focused on multi-objective engineering problems, providing algorithms like NSGA-II/III, MOEA/D, customizable operators, benchmarks, and visualization helpers for Pareto analysis and constrained search.

PyOpenMS Mass Spectrometry

K-Dense-AI/claude-scientific-skills

PyOpenMS exposes OpenMS via Python to cover end-to-end proteomics and metabolomics workflows, including file I/O, signal processing, feature detection, identification, quantitation, and integration with pandas/visualization stacks.

Pysam Genomic Toolkit

K-Dense-AI/claude-scientific-skills

Pysam provides Python bindings to htslib for reading and writing SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences, letting developers query regions, compute coverage, and orchestrate NGS pipelines.

QuTiP Quantum Toolbox

K-Dense-AI/claude-scientific-skills

QuTiP is a Python library for simulating open and closed quantum systems, offering solvers, analysis, visualization, and advanced methods aimed at research, teaching, and modeling Lindblad dynamics or decoherence.

RDKit Cheminformatics Toolkit

K-Dense-AI/claude-scientific-skills

RDKit Cheminformatics Toolkit delivers Python APIs for reading/writing SMILES/SDF/InChI, sanitizing molecules, computing descriptors and fingerprints, running substructure searches/reactions, and visualizing structures for drug discovery and cheminformatics workflows.

Rowan Quantum Chemistry

K-Dense-AI/claude-scientific-skills

Rowan delivers cloud-based quantum chemistry via a Python API for pKa estimation, geometry optimization, conformer search, docking, and AI protein cofolding, giving scientists remote compute and automation for molecular workflows without local setup.

Scanpy Single-Cell Pipeline

K-Dense-AI/claude-scientific-skills

Scanpy provides a scalable Python pipeline for single-cell RNA-seq, covering QC, normalization, dimensionality reduction, clustering, marker discovery, annotation, trajectory analysis, and publication-ready visualizations through AnnData.

Microbiome Bioinformatics Toolkit

K-Dense-AI/claude-scientific-skills

scikit-bio is a Python biological data toolkit for sequence handling, alignments, phylogenetic trees, microbial diversity metrics, and ecological stats, ideal for microbiome research pipelines that need FASTA/Newick I/O and ordination methods.

Survival Analysis Toolkit

scikit-survival

K-Dense-AI/claude-scientific-skills

Comprehensive scikit-survival guidance for handling censored data, building Cox, ensemble, and SVM survival models, and evaluating time-to-event predictions with concordance, AUC, and Brier scores, making it ideal for clinical or reliability studies in Python.

Single-Cell Generative Toolkit

K-Dense-AI/claude-scientific-skills

Provides Pythonic probabilistic deep models for single-cell genomics, covering RNA, ATAC, multimodal, and spatial data—all with batch correction, uncertainty-aware differential expression, and scanpy-friendly APIs.

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