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knowledge-graph
link-prediction
query-answering
graph-generation
graph-diffusion
knowledge-graph-completion
phd-thesis
epfl
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checkpoints
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---
license: mit
language:
  - en
library_name: pytorch
tags:
  - knowledge-graph
  - link-prediction
  - query-answering
  - graph-generation
  - graph-diffusion
  - knowledge-graph-completion
  - phd-thesis
  - epfl
datasets:
  - FB15k-237
  - WN18RR
  - NELL-995
  - QM9
---

# PhD research checkpoints — Andrej Janchevski (EPFL, 2025)

PyTorch checkpoint dump for the three research methods presented in the thesis
_Scalable Methods for Knowledge Graph Reasoning and Generation_
([infoscience.epfl.ch](https://infoscience.epfl.ch/entities/publication/87acf391-feef-43a0-b665-7f2f0bc70b2c)).
The repository mirrors the on-disk layout the demo backend expects, so a single
`huggingface_hub.snapshot_download(repo_id="Bani57/checkpoints", local_dir=...)`
drops every file into its final location with no extra wiring.

The interactive demos that consume these weights are deployed at
<https://bani57-website.hf.space>; source at
<https://huggingface.co/spaces/Bani57/website>.

## Methods and weights

### COINs — knowledge graph reasoning (thesis §3.1)
*Community-Informed Graph Embeddings.* Six embedding scoring families
(TransE, DistMult, ComplEx, RotatE, Q2B, KBGAT) trained on three KGs.
Partitions each KG into Leiden communities and learns separate
community-local and global embeddings, combined at scoring time.

`COINs-KGGeneration/graph_completion/checkpoints/{dataset}_{algorithm}.tar`
— 18 files, ~2.6 GB.
Datasets: `freebase` (FB15k-237), `wordnet` (WN18RR), `nell` (NELL-995).
Algorithms: `transe`, `distmult`, `complex`, `rotate`, `q2b`, `kbgat`.

`COINs-KGGeneration/graph_completion/results/{dataset}/transe_model.tar`
— 3 files, ~185 MB.
TransE pre-init checkpoints used to bootstrap the KBGAT embedder.

### MultiProxAn — graph generation (thesis §4.3)
Discrete denoising diffusion model with the *MultiProx* outer Gibbs loop for
multi-chain refinement. Generates molecular graphs (QM9) and synthetic
community graphs (comm20).

`MultiProxAn/checkpoints/{dataset}{,_c}.ckpt`
— 4 files, ~380 MB.
Discrete (`{dataset}.ckpt`) and continuous (`{dataset}_c.ckpt`) variants.

### KG anomaly correction (thesis §4.4)
DiGress-style diffusion conditioned on the COINs embedder for the same
dataset. Either samples a fresh subgraph (`generate`) or denoises a
user-supplied subgraph (`correct`).

`COINs-KGGeneration/graph_generation/checkpoints/{dataset}{,_correct}.ckpt`
— 6 files, ~2.7 GB.

## Usage

The deployed website downloads the entire repository into its
`CHECKPOINTS_ROOT` at container startup:

```python
from huggingface_hub import snapshot_download
snapshot_download(
    repo_id="Bani57/checkpoints",
    repo_type="model",
    local_dir="src/research",       # mirrors the on-disk layout
    local_dir_use_symlinks=False,
)
```

For accelerated downloads, install `hf_transfer` and set
`HF_HUB_ENABLE_HF_TRANSFER=1`. Total payload ≈ 5.8 GB.

The weights are loaded by [`ModelRegistry`](https://huggingface.co/spaces/Bani57/website/blob/main/src/backend/api/services/registry.py)
in the website backend; lazy per-request loading keeps the working set small.

## Training

The COINs and MultiProxAn checkpoints were trained on EPFL's GPU cluster
during 2021–2025 as part of the doctoral research programme. Training
hyperparameters live in the
[research code's YAML configs](https://huggingface.co/spaces/Bani57/website/tree/main/src/research/COINs-KGGeneration/graph_completion/configs).

## Intended use

These checkpoints are released to power the interactive thesis demos
linked above. They are research artefacts; downstream production use is
neither tested nor supported.

## Citation

```bibtex
@phdthesis{janchevski_scalable_2025,
  author  = {Andrej Janchevski},
  title   = {Scalable Methods for Knowledge Graph Reasoning and Generation},
  school  = {{EPFL}},
  year    = {2025},
  url     = {https://infoscience.epfl.ch/entities/publication/87acf391-feef-43a0-b665-7f2f0bc70b2c},
}
```

## License

MIT for the released weights and source. The research methods retain
their original publication terms; see the thesis.