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README.md DELETED
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- ---
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- licence: unknown
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- ---
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-
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- # Dataset Card for salicylic_acid
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-
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- ## Table of Contents
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- - [Table of Contents](#table-of-contents)
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- - [Dataset Description](#dataset-description)
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- - [Dataset Summary](#dataset-summary)
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- - [Supported Tasks and Leaderboards](#supported-tasks-and-leaderboards)
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- - [External Use](#external-use)
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- - [PyGeometric](#pygeometric)
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- - [Dataset Structure](#dataset-structure)
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- - [Data Properties](#data-properties)
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- - [Data Fields](#data-fields)
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- - [Data Splits](#data-splits)
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- - [Additional Information](#additional-information)
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- - [Licensing Information](#licensing-information)
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- - [Citation Information](#citation-information)
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- - [Contributions](#contributions)
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-
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- ## Dataset Description
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- - **[Homepage](http://www.sgdml.org/#datasets)**
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- - **Paper:**: (see citation)
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-
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-
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- ### Dataset Summary
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- The `salicylic_acid` dataset is a molecular dynamics (MD) dataset. The total energy and force labels for each dataset were computed using the PBE+vdW-TS electronic structure method. All geometries are in Angstrom, energies and forces are given in kcal/mol and kcal/mol/A respectively.
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-
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-
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- ### Supported Tasks and Leaderboards
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- `salicylic_acid` should be used for organic molecular property prediction, a regression task on 1 property. The score used is Mean absolute errors (in meV) for energy prediction.
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-
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-
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- ## External Use
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- ### PyGeometric
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- To load in PyGeometric, do the following:
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-
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- ```python
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- from datasets import load_dataset
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-
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- from torch_geometric.data import Data
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- from torch_geometric.loader import DataLoader
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-
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- dataset_hf = load_dataset("graphs-datasets/<mydataset>")
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- # For the train set (replace by valid or test as needed)
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- dataset_pg_list = [Data(graph) for graph in dataset_hf["train"]]
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- dataset_pg = DataLoader(dataset_pg_list)
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- ```
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-
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- ## Dataset Structure
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-
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- ### Data Properties
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- | property | value |
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- |---|---|
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- | scale | big |
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- | #graphs | 220231 |
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- | average #nodes | 16.0 |
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- | average #edges | 208.2681717461586 |
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-
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- ### Data Fields
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-
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- Each row of a given file is a graph, with:
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- - `node_feat` (list: #nodes x #node-features): nodes
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- - `edge_index` (list: 2 x #edges): pairs of nodes constituting edges
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- - `edge_attr` (list: #edges x #edge-features): for the aforementioned edges, contains their features
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- - `y` (list: #labels): contains the number of labels available to predict
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- - `num_nodes` (int): number of nodes of the graph
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-
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- ### Data Splits
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-
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- This data is not split, and should be used with cross validation. It comes from the PyGeometric version of the dataset.
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-
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- ## Additional Information
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-
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- ### Licensing Information
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- The dataset has been released under license unknown.
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-
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- ### Citation Information
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- ```
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- @inproceedings{Morris+2020,
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- title={TUDataset: A collection of benchmark datasets for learning with graphs},
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- author={Christopher Morris and Nils M. Kriege and Franka Bause and Kristian Kersting and Petra Mutzel and Marion Neumann},
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- booktitle={ICML 2020 Workshop on Graph Representation Learning and Beyond (GRL+ 2020)},
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- archivePrefix={arXiv},
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- eprint={2007.08663},
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- url={www.graphlearning.io},
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- year={2020}
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- }
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- ```
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-
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- ```
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-
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- @article{Chmiela_2017,
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- doi = {10.1126/sciadv.1603015},
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- url = {https://doi.org/10.1126%2Fsciadv.1603015},
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- year = 2017,
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- month = {may},
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- publisher = {American Association for the Advancement of Science ({AAAS})},
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- volume = {3},
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- number = {5},
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- author = {Stefan Chmiela and Alexandre Tkatchenko and Huziel E. Sauceda and Igor Poltavsky and Kristof T. Schütt and Klaus-Robert Müller},
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- title = {Machine learning of accurate energy-conserving molecular force fields},
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- journal = {Science Advances}
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- }
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-
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-
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- ```
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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