Zachary Sailer

Jupyter Server

JupyterLab computational environment.

Jupyter Interactive Notebook

Draw interactive NetworkX graphs with Altair

Pandas DataFrames for phylogenetics

Experimenting with adding authorization to Jupyter Server

Generate Sphinx documentation from pydantic schemas

A simple graphical guide to working as a team on Github

How to navigate Jupyter's configuration system

Ancestral Sequence Reconstruction in Python

Interactive tree visualizations in Python (powered by Vega).

The easy way to set up Python for a scientist.

Jupyter Server implemented using FastAPI

Interactive color palettes in Altair

Git demo for Jupyter interns

"Next generation" kernel API for Jupyter Server

A JupyterLab Plugin for listening to Jupyter events in the frontend.

(WARNING: this isn't working yet!) Python implementation of MAD (minimal ancestor deviation)

No description.

No description.

NetworkX for genotype-phenotype maps

No description.

"Resurrecting ancient proteins in Python" (SciPy 2018 talk by Zach Sailer)

A basic dashboard for multiple Jupyter frontends

Initial (attempt at) documentation around data privacy inside Jupyter deployments

Lightweight Python module for creating, manipulating, and editing kubeconfig files

Metapackage for Claude Code in Jupyter(Lab)

UO bioinformatics students practicing contributing to an open source project.

A shim layer for notebook traits and config

Traitlets module for pathlib

A Python API for managing phylogenetics projects

Current status of Jupyter's Telemetry System

PyData SLO Talk: The easy way to write your own flavor of Pandas

The classic Jupyter Notebook as a server extension

Why DataFrames? A lecture on why DataFrames were developed (targeted at bioinformatics students).

Experimental jupyterhub configs

A directory sharing service for JupyterHub

Shorten any command in your terminal

Genotype-phenotype map visualizations powered by Plotly

The ACP client implementation in Jupyter AI

An extension to add a chat panel to JupyterLab

A CLI-first interface for AI agents to work with notebooks

Enhancement proposals for the Jupyter Ecosystem

Default set of chat commands in Jupyter AI

Server side document handling with improved output handling and kernel management/status.

Track current notebook and active cell in JupyterLab's awareness

The core manager & registry for AI personas in Jupyter AI

JupyterLab Plugin: Show a Cell Diff

An MCP interface/extension for Jupyter Server

A Jupyter AI persona for Claude Code

No description.

JupyterLab commands as an AI Toolkit

A Jupyter Server extension for discovering tools across extensions.

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

WebSocket Connector for pycrdt

CRDTs based on Yrs.

A JupyterLab extension for recording feedback from a cell.

Fast Pluggable System

The team-compass for the Jupyter Kernels Subproject

A Jupyter Server Extension Providing Support for Terminals

A repository for team meetings and org-wide organization things

A repository for Executive Council discussion, syncing, and meeting notes.

Create an online book with Jupyter Notebooks and Jekyll

A generative AI extension for JupyterLab

Asynchronous client for SQLite using AnyIO

A JupyterLab extension for notebook sharing service

Service for sharing Jupyter notebooks between users

A Git extension for JupyterLab

A repository for team discussion, syncing, and meeting notes.

Project Jupyter's home on the World Wide Web

Declarative statistical visualization library for Python

A Jupyter Server Extension Providing Support for Y Documents

The canonical place for Jupyter schema descriptions

Coding assistance for JupyterLab (code navigation + hover suggestions + linters + autocompletion + rename) using Language Server Protocol

A JupyterLab Fasta viewer

The governance process and model for Project Jupyter

Jupyter notebook server extension to proxy web services.

Oral defense for my PhD at University of Oregon, June 2018.

No description.

Solving the (missed) kernel message problem

A conda-smithy repository for jupyter_events.

My personal finance tools

Collects and organizes these schema from across the Jupyter ecosystem.

Jupyter Notebook Extension for monitoring your own Resource Usage

An extension that maintains file IDs for documents in a running Jupyter Server

Configurable event system for Jupyter applications and extensions.

The Jupyter Notebook entrypoint

An implementation of the JSON Schema specification for Python

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

A Cookiecutter recipe for Jupyter Server extensions

[EXPERIMENTAL] A server extension that synchronizes managers in a running Jupyter Server

Team Compass for the Jupyter Notebook subproject

A set of helper scripts and GitHub Actions to aid in automated releases of Python and npm packages.

Jupyter Notebook as a Jupyter Server extension

A repository for team interaction, syncing, and handling meeting notes across the JupyterHub ecosystem.

Jupyter protocol client APIs

No description.

Jupyter Kernel Gateway

Python implementation of R package Janitor

Bootstrap-based sphinx theme from the PyData community

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.

A conda-smithy repository for jupyter_server.

Demo repo

A pytest plugin for testing Jupyter core libraries and extensions.

A set of server components for JupyterLab and JupyterLab like applications

No description.

Telemetry for Jupyter

A repository for testing jupyter server extensions.

A cookiecutter recipe for JupyterLab extensions in Typescript

Tools to help build and install Jupyter Python packages

No description.

No description.

No description.

No description.

No description.

No description.

Jupyter Notebooks with training material for HS interns.

Experimental: shared Jupyter Server for projects+teams

Jupyter notebooks that analyze COVID-19 time series data

A Python API for estimating statistical high-order epistasis in large genotype-phenotype maps.

A Python API that predicts missing data in sparsely sampled genotype-phenotype maps

Testing out GH Actions for Python package publishing and versioning

Pipeline components for real-time phylodynamic analysis

Sphinx extension for auto-generating Jupyter Telemetry schema documentation.

Research on the usage of Jupyter notebooks

My CV in Latex

Unit tests for Jupyter Server in pytest

Json schema types in python

A demo where we build "rich context" from Jupyter's Telemetry System

Canonical location of Python Software Foundation Request for Information/Proposal documents.

📘 The interactive computing suite for you! ✨

Python composable command line interface toolkit

From Jupyter notebooks to standalone applications

Event validation, schema generation, and logging in pure Python

A python API for analyzing large genotype phenotype maps

Package Manager UI for Jupyter Frontends

Send requests to a running Jupyter server.

A Scikit-learn interface on Scipy's spline.

A JupyterLab extension for logging and telemetry of usage data

Design related materials for Project Jupyter

Personal website

Content for my blog.

Jupyter server extensions as applications [experimental]

Jupyter metapackage for installation, docs and chat

The easy way to write a JupyterHub Service

A Simple Telemetry System for JupyterHub

Tornado is a Python web framework and asynchronous networking library, originally developed at FriendFeed.

A JupyterLab extension for notebook cell tags

A symbolic algebra for specifying simulations.

Jupyterhub authenticator for Keycloak

A minimalist Jekyll theme for running an online publication

A Python API for computing evolutionary paths across genotype-phenotype maps and clustering of genotype-phenotype maps.

Run Jupyter widgets outside of the notebook

Core Jupyter functionality

A lightweight Traits like module

Solution to the Kaggle restaurant visitor forecasting

k8s on EKS deployment

Demo a git conflict.

CLI utility for creating and manage multiple JupyterHub deployments

Official Python client library for kubernetes

Surveys and datasets collected by Project Jupyter

No description.

Tools for build sequence spaces (i.e. genotype-phenotype maps) from protein lattice models

Dummy repo for testing

Multi-user server for Jupyter notebooks

Interactive lessons in bioinformatics.

Simple password generator/management tool written in Python.

No description.

:sparkles: A place to collaborate on nteract logos :sparkles:

Pandas plotting to vega/vega-lite

Resources for deploying JupyterHub to a Kubernetes Cluster

PyQt5 GUI for pytc API

A conda-smithy repository for pandas_flavor.

A repository for public storage of slides given at the 17th Python in Science Conferences (2018)

Short intro to practicing reproducible science in the Jupyter Notebook

Full integration of animated javascript-based visualizations (D3, vega-lite, semiotic, etc ...) into Reveal.js presentations

High-order epistasis in ecological systems

automatically generate reveal.js slides

Generic multi-peak fitter in Python

No description.

Tutorial notebooks for our epistasis package hosting on mybinder

Emcee in parallel using Dask.

Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

Official git repository for Biopython (converted from CVS)

2d protein lattice models simulator in Python

Notebooks demonstrating to origins of high-order epistasis from statistical mechanical ensembles

Demo of working on Github as a team

Simpler command line interface for SLURM systems

The remote jupyter kernel/kernels administration utility

A minimalist tree plotting library using toyplot graphs

A python script that maps taxon information to a Nexus tree.

A simple python package to fetch taxonomic data through Entrez.

Python functions for searching SILVA living tree

A cookiecutter for rendering MIME type based output

reproducing live because we are cool

Slides for my JupyterCon 2017 talk

Personal Hugo built Blog

Demonstrations of JupyterLab

interactive phylogenetic tree viewer

A curated list of experimental genotype-phenotype maps from published literature in JSON format