Supporting data for "Interpreting complex ecological patterns and processes across differentscales using Artificial Intelligence" by Yifei Gu (9507104)

“…<p dir="ltr">This thesis bridges the gap between field observations and the empirical understanding of ecological systems by applying AI models at different spatial scales and hierarchical levels to study ecological complexity. The detailed implementation, source code and demo dataset are included in dedicated folders for each chapter.…”

Dialogue Propositional Content Replacement (DPCR) code by Jacopo Amidei (10511297)

“…<p dir="ltr">This resource consists of a Python notebook with code that was implemented for a research project that developed a novel method for testing the components of theories of (dialogue) coherence through utterance substitution. …”

Online Resource 3: Word Cloud Dataset and Code by Jessica Zylla (17692920)

“…<p dir="ltr">Online Resource 3: Word Cloud Dataset and Code. This set of files are part of Online Resource 3, which allows readers to implement a Jupyter Notebook Python program to create a word cloud based on survey responses. …”

Python code for a rule-based NLP model for mapping circular economy indicators to SDGs by Zahir Barahmand (18008947)

Example change statistic implementations. by Alex Stivala (8356257)

“…ALAAMEE implements both the stochastic approximation and equilibrium expectation (EE) algorithms for ALAAM parameter estimation, including estimation from snowball sampled network data. …”

Simple implementation examples of agent AI on free energy calculation and phase-field simulation by Toshiyuki Koyama (22828581)

“…</p> <p>Using Gibbs energy calculations and diffusion simulations as examples, we demonstrated the implementation method and usefulness of simple agent AI, where sample python codes are distributed as supplemental materials.…”

PYTHON by Kan Jia (21666161)

Reproducible implementation for article: Reproducibility study of the modular and reusable model of epithelial transport in the proximal convoluted tubule by Leyla Noroozbabaee (14301173)

Python sript. by Kan Jia (6438599)

CSMILES: A Compact, Human-Readable SMILES Extension for Conformations by James W. Furness (22319738)

“…As such, canonical CSMILES strings are invariant to atom reordering, rigid translation, and rigid rotation. A two-way conversion from three-dimensional (3D) structure to CSMILES has been implemented, and the article is accompanied by a Python code which effectuates such conversions. …”

CSMILES: A Compact, Human-Readable SMILES Extension for Conformations by James W. Furness (22319738)

“…As such, canonical CSMILES strings are invariant to atom reordering, rigid translation, and rigid rotation. A two-way conversion from three-dimensional (3D) structure to CSMILES has been implemented, and the article is accompanied by a Python code which effectuates such conversions. …”

Numerical data and codes for "Noisy Probabilistic Error Cancellation and Generalized Physical Implementability" by Tian-Ren Jin (18781930)

“…<p dir="ltr">This data set contains the data and codes for "Noisy Probabilistic Error Cancellation and Generalized Physical Implementability". …”

Overview of the implemented simulation tool and training framework in Diffrax. by Paul van Lent (16876977)

Finites differences python code to solve CH equation with a source term and Comsol routine to solve Brusselator equation in radial domains. by Giulio Facchini (9031490)

“…<p dir="ltr"><b><i>* Cahn-Hilliard simulations *</i></b><br>Finite difference code implementing the modified Cahn Hilliard equation with a forward Euler scheme and the possibility to parallelize the solver using the numba python library.…”

EFGs: A Complete and Accurate Implementation of Ertl’s Functional Group Detection Algorithm in RDKit by Gonzalo Colmenarejo (650249)

“…In this paper, a new RDKit/Python implementation of the algorithm is described, that is both accurate and complete. …”

Parameter estimates and estimated standard errors from the EE algorithm. by Alex Stivala (8356257)

Python file of the computational framework. by Benoit Haut (9753029)

Type II error rate from estimation of simulated outcomes using the EE algorithm. by Alex Stivala (8356257)

Type I error rate from estimation of simulated outcomes using the EE algorithm. by Alex Stivala (8356257)

The format of the electrode csv file by Joseph James Tharayil (21416715)

“…To enable efficient calculation of extracellular signals from large neural network simulations, we have developed <i>BlueRecording</i>, a pipeline consisting of standalone Python code, along with extensions to the Neurodamus simulation control application, the CoreNEURON computation engine, and the SONATA data format, to permit online calculation of such signals. …”