[Mini-article] VESRI article

[RaoOfPhysics]

Possibility: VESRI (Virtual Earth System Research Institute) paper.

Figs 2 and 4 show curves from non-linear model fits from which we typically extract parameters (Vmax and Km). Then we often plot the Vmax as a function of time, environment, etc. as is shown in Fig. 5. It would be great if we could for example click on a mean in Fig. 5, pull up the distribution underlying that mean, choose a point in that distribution, and pull up the non-linear model fit (and data points) underlying that point. If the non-linear curve fit looks weird, it would be great to select individual points on that curve and visualize the raw data from the microplate reader that went into the computation of that point (e.g. fluorescence values in Eqs. 1-4). That should give you a sense of the nested steps involved in these analyses.

See also:

• 34

[rolyp]

Paper from Steve Allison attached here:

german2011.pdf

It's from 2011 but describes some of the calculations and data presentations. It sounds like Steve has used this overall method quite a bit subsequently. The provenance story (see issue body above) is pretty cool and definitely worth exploring as a target article.

It's also interesting because there's some tabular data here (presumably calculated) so we could do some provenance linking there as well.

[rolyp]

Other random notes from Cross-VESRI Convening:

• [Partial] Residual plots

• LemonTree: Optimality models (EEO) as parameter-sparse dynamical alternatives to “prescribed fields”

• EKI particle traversal over loss landscape -- data-driven calibration (quiver plots)

• Leap-Pangeo (instant access to HPC analysis-ready data)

• Receptive field for CNN based approaches reveals altitute range in input layer used by output layer -- can we use receptive field as a quantitative metro to predict instability. Also “Effective RF” is a potentially interesting idea -- how much an output affected by change in input. (https://arxiv.org/abs/2407.05224)

[rolyp]

Dropped back to Proposed as out-of-scope for now.