PORTFOLIO

An Experiment-Informed HDP-HMM to Analyze Surface-Immobilized smFRET Data

BayesFRET is a Python GUI app for my M.S. thesis implementing a nonparametric Bayesian method to estimate the conformational dynamics of intrinsically-disordered molecules (ex. enzymes, Holliday junctions). Specifically, an experiment-informed HDP-HMM estimates the number and behavior of distinct conformational states of the observed molecule that went through a surface-immobilized smFRET experiment. This was originally a Ph.D.-level NSF project that became my thesis for an M.S. in Scientific Computing.

Data: Experimental (real) or synthetic (generated) time-binned photon intensities and experiment parameters of the observed molecule. Prior distributions optional.
Method: 4 Markov Chain Monte Carlo (MCMC) simulations on an experiment-informed Hierarchical Dirichlet Process-Hidden Markov Model (HDP-HMM).
Results: A folder of graphs (PNG) and numerical data (Pickle, TXT files) of simulation history and convergence.

For example, an enzyme usually has at least 2 conformational states (open for business, closed for processing), but we don't know the number of states by default. The graph example below is the estimated behavior of a Holliday junction.

Original work and MATLAB app were made by Sgouralis et al. This GUI enhances and expands capabilities from the original work, taking initiative to increase efficiency fivefold and the number of MCMC simulations from 1 to 4.

Disclaimer: The BayesFRET GPT did not provide any useful output for the final version of the thesis. It was strictly useful for brainstorming.

Repo

Thesis

GPT

Based On

CHS HDF5 Converter for Coastal and Hydraulics Lab

A Python GUI for a USACE internship project to restructure data from custom HDF5 files into a table (CSV) format for easy reading and access. Translated MATLAB app to a Python app using PySide6 for the GUI and multiprocessing to process files. For small datasets, users can also view, filter, and graph data with the Data Viewer tab. Filtered datasets can also be exported. The program only accepts HDF5 files from the Coastal Hazards Systems (CHS) database here.

Repo

Database

Try My Advanced Exercise for Microsoft Excel with D&D themes!

Instructions.pptx

Start.xlsx

Hidalgo Consulting logo 2025. An upcoming family service for academic research and consulting, dissertation coaching, and manuscript development.	2024: ReaLife HD YouTube channel was founded in 2013. Current logo was designed in 2024.	2024: The Sagaology Songs Album cover for upcoming original music of The Sagaology Series.
2023: Bright Day 5 - Black Sun Playlist cover for nightly rave music. Playlist in link.	2023: Website Redesign An internship project of updates to website under construction. Designed to organize data into reports for urban planners. Used Docker, PostGIS, JavaScript, Echo (Go).	2021: F in the Chat Concept art wallpaper for a YouTube channel.
2021: Iglesia Adventista de Las Cuevas Former logo for Facebook and YouTube pages of family's local church. Used in 2021-2024.	2021: Minimalist Polybius Concept art for the urban legend with themed logos. Link hosts more photos.	2020: Konosuba Shots Wallpaper for a fanfic blog of mini-stories.
2019: Sociedad de Jóvenes - Los Momentos A recap video for my family's local church.	2017: BasketStar Banner of an attempt to make a basketball game in space for a programming class.	2016: The Crossing crawl Link to one of the many archived video drafts for a custom Star Wars crawl for a crossover fanfic using AfterEffects.
2015: Radford University - Exit 109 Former official logo for literary magazine. Title font: "One Day Before Rain" (http://dafont.com/onedaybeforerain.font). Its use was approved by the font's creator.	2013: Poetika banner Advertisement for my high school's second poetry event. Borrowed image by Jesper Kristiansen.

ReaLife HD background (full) (watermarked).jpg

Symphony Atrium v4 square [compressed].jpg

An upcoming sci-fi series. Each image has a synopsis.

TSS1 \| The Voyage Diaries [Active] A deep space exploration team is caught in an interstellar war for the multiverse.	TSS2 \| The Tribes of Destiny Cyvu and Malamus must face their past as Earth is caught in the middle of a devastating civil war.
TSS3 \| RE-EVOLUTION A rogue alien army invades Earth, but an alliance forms.	TSS4 \| The Impossiblers A faction of Predictors wages war on the newly-formed defense alliance.
TSS5 \| The Impossiblers and the Empires of Calamity A mysterious leader unites worlds into a vast organization against order.	TSS6 \| The Impossiblers: Hyperdrive wallpaper The Impossiblers establish a death-defying interstellar Olympics event and train for the Triple Infinite challenge.
TSS7 \| The Infinite Window A resistance group fights an AI superpower with supernatural powers. One season encompasses this story.	TSS8 \| The Infinite Impossiblers The Impossiblers reconstruct the multiverse, facing various challenges from local conflicts to beyond their multiverse. At least five seasons encompass this story.

Konosuba: No Regrets in this Wonderful World! [Active] As Kazuma deals with adventuring, a time-honored festival, and his ex, an ancient rivalry threatens to take over the world.	The Kinishwi Force and the Anime Multiverse As the Voyanu Express creates new anime worlds, the Kinishwi Force works to keep the peace between worlds. 4 seasons encompass this story.
Code Fowl: A Kinishwi Story Artemis Fowl and Lelouch Lamperouge team up with exiled characters whose non-anime worlds were destroyed by the Saiba.	Doki Doki Universe!: A Kinishwi Story The Doki girls and MC/Dylan grow and try to find their place in the digital and real worlds while facing “The Glitch,” a Monika clone with severe disorders from the game’s easter eggs. Four seasons encompass this story.
The Crossing: Star Wars x Star Trek The Megapower, an ex-Empire army of Force Clones, drags the Enterprise and a Klingon ship to the peaceful Star Wars galaxy after millenia of exile.	The Bourne Flagship After finding his long-lost mother, Bourne and friends band together to fight a successful Treadstone-like organization bent on tearing down the CIA.
The Paradox Protocol: A D&D Story A misfit group of adventurers uncover the truth about their real past, an evil organization, and a military strategy to confuse enemies with magic.	Mission: Impossible - The Ballad of Ethan Hunt Ethan Hunt was never alone. Grant Pax leads a team of IMF agents to help Hunt in the shadows while taking down rogue organizations and training a new generation. Each season corresponds to each movie.

TSS1 \| The Voyage Diaries [Active] A deep space exploration team is caught in an interstellar war for the multiverse.	TSS2 \| The Tribes of Destiny Cyvu and Malamus must face their past as Earth is caught in the middle of a devastating civil war.
TSS3 \| RE-EVOLUTION A rogue alien army invades Earth, but an alliance forms.	TSS4 \| The Impossiblers A faction of Predictors wages war on the newly-formed defense alliance.
TSS5 \| The Impossiblers and the Empires of Calamity A mysterious leader unites worlds into a vast organization against order.	TSS6 \| The Impossiblers: Hyperdrive wallpaper The Impossiblers establish a death-defying interstellar Olympics event and train for the Triple Infinite challenge.
TSS7 \| The Infinite Window A resistance group fights an AI superpower with supernatural powers. One season encompasses this story.	TSS8 \| The Infinite Impossiblers The Impossiblers reconstruct the multiverse, facing various challenges from local conflicts to beyond their multiverse. At least five seasons encompass this story.

PORTFOLIO

Hidalgo Consulting logo

2025. An upcoming family service for academic research and consulting, dissertation coaching, and manuscript development.

2024: ReaLife HD

YouTube channel was founded in 2013. Current logo was designed in 2024.

2024: The Sagaology Songs

Album cover for upcoming original music of The Sagaology Series.

2023: Bright Day 5 - Black Sun

Playlist cover for nightly rave music. Playlist in link.

2023: Website Redesign

An internship project of updates to website under construction. Designed to organize data into reports for urban planners. Used Docker, PostGIS, JavaScript, Echo (Go).

2021: F in the Chat

Concept art wallpaper for a YouTube channel.

2021: Iglesia Adventista de Las Cuevas

Former logo for Facebook and YouTube pages of family's local church. Used in 2021-2024.

2021: Minimalist Polybius

Concept art for the urban legend with themed logos. Link hosts more photos.

2020: Konosuba Shots

Wallpaper for a fanfic blog of mini-stories.

2019: Sociedad de Jóvenes - Los Momentos

A recap video for my family's local church.

2017: BasketStar

Banner of an attempt to make a basketball game in space for a programming class.

2016: The Crossing crawl

Link to one of the many archived video drafts for a custom Star Wars crawl for a crossover fanfic using AfterEffects.

2015: Radford University - Exit 109

Former official logo for literary magazine. Title font: "One Day Before Rain" (http://dafont.com/onedaybeforerain.font). Its use was approved by the font's creator.

2013: Poetika banner

Advertisement for my high school's second poetry event. Borrowed image by Jesper Kristiansen.

TSS1 | The Voyage Diaries

[Active] A deep space exploration team is caught in an interstellar war for the multiverse.

TSS2 | The Tribes of Destiny

Cyvu and Malamus must face their past as Earth is caught in the middle of a devastating civil war.

TSS3 | RE-EVOLUTION

A rogue alien army invades Earth, but an alliance forms.

TSS4 | The Impossiblers

A faction of Predictors wages war on the newly-formed defense alliance.

TSS5 | The Impossiblers and the Empires of Calamity

A mysterious leader unites worlds into a vast organization against order.

TSS6 | The Impossiblers: Hyperdrive wallpaper

The Impossiblers establish a death-defying interstellar Olympics event and train for the Triple Infinite challenge.

TSS7 | The Infinite Window

A resistance group fights an AI superpower with supernatural powers. One season encompasses this story.

TSS8 | The Infinite Impossiblers

The Impossiblers reconstruct the multiverse, facing various challenges from local conflicts to beyond their multiverse. At least five seasons encompass this story.