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Python · By davila7

56 skills found.
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1
1.Neuropixels Data Analysis

Analyzes Neuropixels recordings from SpikeGLX or Open Ephys through preprocessing, drift correction, Kilosort4 spike sorting, quality metrics and curation.

davila7/claude-code-templates33k9 repos~2.8kAutomated safety check: PassMITtoday
2
2.UniProt Database Access

Queries the UniProt REST API directly to search proteins, fetch FASTA sequences, map IDs between databases and read Swiss-Prot and TrEMBL entries.

davila7/claude-code-templates33k14 repos~1.7kAutomated safety check: PassMITtoday
3
3.pydicom DICOM Toolkit

Reads, edits, anonymizes and converts DICOM medical imaging files with pydicom, including pixel data extraction and compressed transfer syntaxes.

davila7/claude-code-templates33k11 repos~3.3kAutomated safety check: PassMITtoday
4
4.RDKit Cheminformatics

Guides molecular work with RDKit in Python: reading SMILES and SDF, sanitization, descriptors, fingerprints, substructure and similarity search, reactions and coordinates.

davila7/claude-code-templates33k14 repos~5kAutomated safety check: PassMITtoday
5
5.deepTools NGS Toolkit

Guides use of deepTools on sequencing data: BAM to bigWig conversion, QC, sample correlation, and heatmaps or profiles around TSS and peaks for ChIP-seq, RNA-seq and ATAC-seq.

davila7/claude-code-templates33k12 repos~4.5kAutomated safety check: PassMITtoday
6
6.Kegg Database

Direct REST API access to KEGG (academic use only). An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k9 repos~2.9kAutomated safety check: PassMITtoday
7
7.Aeon Time Series Machine Learning

Guides time series machine learning with the aeon toolkit: classification, regression, clustering, forecasting, anomaly detection, segmentation and similarity search.

davila7/claude-code-templates33k13 repos~2.6kAutomated safety check: PassMITtoday
8
8.PyMC Bayesian Modeling

Builds, fits, checks and compares Bayesian models in PyMC, from priors and NUTS sampling to variational inference, LOO and WAIC comparison, and diagnostics.

davila7/claude-code-templates33k11 repos~3.9kAutomated safety check: PassMITtoday
9
9.LaminDB Biological Data Management

Manages biological datasets with LaminDB: versioned artifacts, run lineage, ontology-based annotation, schema validation and links to workflow managers and ML tools.

davila7/claude-code-templates33k12 repos~3.6kAutomated safety check: PassMITtoday
10
10.Vaex Out-of-Core DataFrames

Processes tabular datasets too large for RAM with Vaex: lazy DataFrames, fast aggregations, big-data plots and ML pipelines over CSV, HDF5, Arrow and Parquet.

davila7/claude-code-templates33k12 repos~1.6kAutomated safety check: PassMITtoday
11
11.System Resource Detector

Detects CPU, GPU, memory and disk resources before heavy scientific tasks and writes a JSON file with advice on parallelism, out-of-core work and GPU use.

davila7/claude-code-templates33k10 repos~2.4kAutomated safety check: PassMITtoday
12
12.PyDESeq2 Differential Expression

Runs differential gene expression analysis on bulk RNA-seq counts with PyDESeq2: design formulas, Wald tests, FDR correction and volcano or MA plots.

davila7/claude-code-templates33k11 repos~4kAutomated safety check: PassMITtoday
13
13.Chembl Database

Query ChEMBL's bioactive molecules and drug discovery data. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k11 repos~2.5kAutomated safety check: PassMITtoday
14
14.ETE Toolkit for Phylogenetic Trees

Guides your agent through building, editing, comparing and drawing phylogenetic trees with the ETE Python toolkit, including orthology calls and NCBI taxonomy lookups.

davila7/claude-code-templates33k11 repos~4.5kAutomated safety check: NotesMITtoday
15
15.openFDA Regulatory Data Queries

Queries the openFDA API from Python for drug, device, food and veterinary data: adverse events, recalls, labels, approvals, NDC and UNII lookups.

davila7/claude-code-templates33k11 repos~3.6kAutomated safety check: PassMITtoday
16
16.Gtars Genomic Interval Toolkit

Works with genomic intervals using gtars, a Rust toolkit with Python bindings: overlap detection, coverage tracks, tokenization for ML models and reference sequences.

davila7/claude-code-templates33k11 repos~1.9kAutomated safety check: PassMITtoday
17
17.Histolab Whole Slide Image Tiling

Processes digital pathology whole slide images with histolab: tissue detection, mask creation, tile extraction and dataset preparation for deep learning.

davila7/claude-code-templates33k11 repos~5.1kAutomated safety check: PassMITtoday
18
18.Medchem Compound Filters

Screens compound libraries in Python with the medchem library: drug-likeness rules, PAINS filters, structural alerts and complexity metrics for prioritizing molecules.

davila7/claude-code-templates33k11 repos~2.5kAutomated safety check: PassMITtoday
19
19.NeuroKit2 Biosignal Processing

Processes physiological signals with NeuroKit2 in Python: ECG, PPG, EEG, EDA, respiration, EMG and EOG, including HRV, events and complexity measures.

davila7/claude-code-templates33k11 repos~3kAutomated safety check: PassMITtoday
20
20.PyHealth Clinical ML Toolkit

Builds machine learning pipelines on clinical data with PyHealth: EHR datasets, prediction tasks, medical code mapping, healthcare models and evaluation.

davila7/claude-code-templates33k11 repos~4.4kAutomated safety check: PassMITtoday
21
21.Pyopenms

Python interface to OpenMS for mass spectrometry data analysis.

davila7/claude-code-templates33k11 repos~1.4kAutomated safety check: PassMITtoday
22
22.scikit-survival Time-to-Event Modeling

Fits and evaluates survival models with scikit-survival: Cox models, Random Survival Forests, boosting, survival SVMs, concordance index, Brier score and competing risks.

davila7/claude-code-templates33k11 repos~3.7kAutomated safety check: PassMITtoday
23
23.SHAP Model Explainability

Explains machine learning predictions with SHAP: picking the right explainer, computing Shapley values and drawing waterfall, beeswarm, bar and force plots.

davila7/claude-code-templates33k11 repos~4.6kAutomated safety check: PassMITtoday
24
24.Hugging Face Transformers Usage

Loads pre-trained Hugging Face Transformers models for text, vision and audio tasks, runs inference with pipelines and fine-tunes on custom datasets.

davila7/claude-code-templates33k11 repos~1.2kAutomated safety check: PassMITtoday
25
25.Anndata

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling…

davila7/claude-code-templates33k11 repos~2.5kAutomated safety check: PassMITtoday
26
26.USPTO Patent and Trademark Data

Searches USPTO patent and trademark data through its APIs: patent search, PEDS examination history, assignments, citations, office actions and TSDR status.

davila7/claude-code-templates33k11 repos~4.6kAutomated safety check: PassMITtoday
27
27.Plotly

Interactive scientific and statistical data visualization library for Python.

davila7/claude-code-templates33k14 repos~1.8kAutomated safety check: PassMITtoday
28
28.Product Manager Toolkit

Scores feature requests with RICE, mines customer interview transcripts for pain points, and offers PRD templates, with two Python scripts behind it.

davila7/claude-code-templates33k7 repos~2.2kAutomated safety check: PassMITtoday
29
29.Bioservices

Primary Python tool for 40+ bioinformatics services. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k10 repos~2.5kAutomated safety check: PassMITtoday
30
30.GeoPandas Spatial Analysis

Handles vector geospatial data in Python with GeoPandas: reading shapefiles, GeoJSON and GeoPackage, reprojecting, spatial joins, overlays, clipping and maps.

davila7/claude-code-templates33k10 repos~1.8kAutomated safety check: PassMITtoday
31
31.Pylabrobot

Laboratory automation toolkit for controlling liquid handlers, plate readers, pumps, heater shakers, incubators, centrifuges, and analytical equipment.

davila7/claude-code-templates33k10 repos~2.1kAutomated safety check: PassMITtoday
32
32.FluidSim CFD Simulations

Runs computational fluid dynamics simulations with the FluidSim Python framework: 2D and 3D Navier-Stokes, shallow water and stratified flow solvers plus output analysis.

davila7/claude-code-templates33k9 repos~2.3kAutomated safety check: PassMITtoday
33
33.Reactome Database

Query Reactome REST API for pathway analysis, enrichment, gene-pathway mapping, disease pathways, molecular interactions, expression analysis, for systems biology studies.

davila7/claude-code-templates33k9 repos~1.9kAutomated safety check: PassMITtoday
34
34.Biopython

Primary Python toolkit for molecular biology. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k12 repos~3.4kAutomated safety check: PassMITtoday
35
35.Gget

CLI/Python toolkit for rapid bioinformatics queries. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k10 repos~6.3kAutomated safety check: PassMITtoday
36
36.Dnanexus Integration

DNAnexus cloud genomics platform. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k11 repos~2.6kAutomated safety check: PassMITtoday
37
37.Latchbio Integration

Latch platform for bioinformatics workflows. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k11 repos~2.4kAutomated safety check: PassMITtoday
38
38.Omero Integration

Microscopy data management platform. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k11 repos~2kAutomated safety check: PassMITtoday
39
39.Modal

Run Python code in the cloud with serverless containers, GPUs, and autoscaling.

davila7/claude-code-templates33k7 repos~2.6kAutomated safety check: PassMITtoday
40
40.Pennylane

Cross-platform Python library for quantum computing, quantum machine learning, and quantum chemistry.

davila7/claude-code-templates33k7 repos~1.9kAutomated safety check: PassMITtoday
41
41.Benchling Integration

Benchling R&D platform integration. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k10 repos~3.2kAutomated safety check: PassMITtoday
42
42.N8n Code Python

Write Python code in n8n Code nodes. An agent skill from davila7/claude-code-templates.

davila7/claude-code-templates33k7 repos~4.5kAutomated safety check: PassMITtoday
43
43.Fastapi Pro

Build high-performance async APIs with FastAPI, SQLAlchemy 2.0, and Pydantic V2.

davila7/claude-code-templates33k8 repos~1.6kAutomated safety check: PassMITtoday
44
44.Python Pro

Master Python 3.12+ with modern features, async programming, performance optimization, and production-ready practices.

davila7/claude-code-templates33k8 repos~1.8kAutomated safety check: PassMITtoday
45
45.Slack Bot Builder

Build Slack apps using the Bolt framework across Python, JavaScript, and Java.

davila7/claude-code-templates33k5 repos~2.2kAutomated safety check: PassMITtoday
46
46.Discord Bot Architect

Specialized skill for building production-ready Discord bots.

davila7/claude-code-templates33k7 repos~2kAutomated safety check: PassMITtoday
47
47.Senior Backend

Comprehensive backend development skill for building scalable backend systems using NodeJS, Express, Go, Python, Postgres, GraphQL, REST APIs.

davila7/claude-code-templates33k1 repo~1.1kAutomated safety check: NotesMITtoday
48
48.Senior Data Engineer

World-class data engineering skill for building scalable data pipelines, ETL/ELT systems, and data infrastructure.

davila7/claude-code-templates33k1 repo~1.4kAutomated safety check: PassMITtoday

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