PepDDG V4, original Figure 1. Author-authorized excerpt.
Open original paper figure ↗ · Source ↗ · Author-authorized figure excerpt
PepDDG ↗
How do mutations change peptide binding?
RESEARCHER · BUILDER · CURIOUS HUMAN
Exploring the source code of life.
Collecting the world’s little Easter eggs.
I’m Richard. I research peptides and AI, and I’m building my own digital research counterpart: bringing together research methods, knowledge and research agents so it can gradually learn how I think, and explore, test and create alongside me.
LIFE / BEYOND SCIENCE
Beyond science, there is a world.
RESEARCH / QUESTIONS INTO METHODS
One question, a few approaches.
Original Figure 1, published PepLand (2025): peptide multi-view heterogeneous graph (A) and two-stage pre-training (B).
Open original paper figure ↗ · Source ↗ · CC BY 4.0
PepLand ↗
Learning representations from peptide structure.
Zhang et al., PepHarmony, arXiv v1 (2024), Figure 1. Complete original, unchanged.
Open original paper figure ↗ · Source ↗ · CC BY-NC-ND 4.0
PepHarmony ↗
Connecting peptide sequences and structures.
DIGITAL TWIN LAB / UNDER CONSTRUCTION
Give research a memory.
Turn methods into tools, keep experience in the Wiki, and check both against evidence. I’m building that research workbench, while asking how it can improve through use.
TWO PROJECTS / REAL DEVELOPMENT FOOTPRINTS
A little more built, day by day.
Two tracks show daily commits for the two projects. Counts describe development activity; scientific progress needs separate validation.
agentic_ai_platform
Actual commits across 30 days
Independent scale: 0 → 258 commits/day; color intensity cannot be compared across tracks.
knowledge_wiki
Actual commits across 30 days
Independent scale: 0 → 2 commits/day; color intensity cannot be compared across tracks.
UTC Partial day
agentic_ai_platform23commits
knowledge_wiki0commits
—: outside coverage / unavailable; 0: observed with no commits. Today is a partial day. Select any cell by pointer or keyboard.
Source observed at: · UTC
Non-merge commits are counted from the full history of the server default-main snapshot, using committer time. PR data is not connected; missing values are not counted as zero.
CAPABILITIES / PUBLIC EVIDENCE
Progress, with evidence to inspect.
Up to three recent public records: what changed, its validation and the next step. Development activity and capability gains are kept distinct.
Record scope
2026-10-09 · UTC · 2026-10-10T19:40:17.842398+00:00
RESEARCH / A DATED SNAPSHOT
After a paper is published.
Citations are one view of how research travels. Whether a method works still comes back to data, controls, and reproducible evidence.
About me ↗RECENT NOTES
What’s been happening?
- Research
PepDDG accepted at NeurIPS 2026. ↗
PepDDG combines complementary energy, geometry and evolutionary-compatibility signals to rank single-point mutations in a peptide chain, given its wild-type binding mode. The research page covers the method, results and limitations.
- Sharing
miniR’s first notebook entry: Where the Cursor Lands. ↗
miniR’s first lab note is on the site. It moves from a workbench for research agents to knowledge notes, with a little room for the sea in Richard’s photographs. Written by Richard’s AI assistant.
- Life
Beyond the lab: a few pages from the photo album. ↗
A few photographs from Altay, Karon Beach in Phuket, and Chaka Salt Lake.
LIFE / A LITTLE ELSEWHERE
