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Robert H Cudmore, PhD

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I build scientific software that transforms biological data into reproducible quantitative results. My work is focused on algorithm design, visualization tools for desktop and web, and online scientific data sharing.

Software Projects

CloudScope
CloudScope
Web App

Image analysis for microscopy data with desktop, web, and scripting. Uses reproducible AcqStore analysis engine and produces datasets that are visualized on the web with CloudScope-Web

Docs

CloudScope-Web
Web App

Website to view published CloudScope datasets.

GitHub Docs

SanPy
SanPy

Desktop software for whole-cell current clamp analysis.

GitHub Docs PubMed

SanPy-Web
Web App

Website to view published SanPy datasets.

GitHub Docs

MapManager
MapManager
Web App

Next generation longitudinal dendritic spine analysis with desktop, web, and Python backend.

WebMapManager PyMapManager MapManagerCore

MapManager - Igor
Web App (Dash)

Original Igor Pro version of MapManager for longitudinal image analysis.

Docs

AcqView
AcqView
Web App

Website to open and visualize local microscopy files. A quick way to open and inspect your raw imaging data including oir, czi, nd2, and tif files.

GitHub

PiE
PiE

A Raspberry Pi Controlled Experiment (PiE).

GitHub Docs PubMed

Modular Tools

Brightest Path Lib
Brightest Path Lib

Path-finding algorithms to find the brightest path between points in an image.

GitHub Docs PubMed PyPI

AcqStore
AcqStore

Image loading, analysis algorithms, and export tools for Python. Used by CloudScope.

GitHub Docs

Web-Components
Web-Components

Reusable web components written in node/typescript/vue. Check out the live web-app links below.

GitHub Docs Image Viewer Nice Pool Signal Viewer

NiceWidgets
NiceWidgets
Web App

Reusable NiceGUI widgets.

GitHub Docs