Notebooks - Living Physics Lab Notes

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How I Built This Quarto Notes Site

Builds

Notes

This note describes how I set up and hosted this quarto notes site on the notes.x subdomain of my domain livingphysics.org. To do this I run quarto locally in Visual Studio…

First Generation Bioreactor Build Note

Builds

Bioreactor

This note describes the design and construction of a RaspberryPi based 4-bioreactor system that has external illumination, external temperature recording, and magnetic…

David Jordan, Michele Cespa

Sailing Away

News

Recently I have started an independent research lab outside of (but adjacent to) academia. Upon hearing this, many people have commented: “that sounds like a lot of work”.…

Welcome To Concepts

News

This is the first build post in a Quarto blog. Welcome!

TAI Note

TAI

This note concerns the use of data transformations in calculations of the Transcriptome Age Index or TAI. Here I argue that the TAI, when calculated as an expression…

Observable functions and their dynamics

Observable Functions

Projection Operators

In the previous note I concluded with these points about observable functions and projection,

Introduction and Motivations for a Projection Operator Approach

Projection Operators

Dynamical Closure

This note introduces projection operators and their use in studying partially observed dynamical systems. The concept of dynamical closure is introduced, which is equivalent…

Projection in terms of the Gram Matrix

Gram Matrix

Projection Operators

This is a quick note showing how the optimal projection can be derived in terms of the inversion of the gram matrix used in the note on the connection between sloppiness and…

An interesting connection between sloppy model analysis and projection operators

Sloppy Models

Projection Operators

This note concerns various ways I have been thinking about basis functions with connections between some other fields I have been interested in, namely, projection…