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[SDF](https://pubs.acs.org/doi/abs/10.1021/ci00007a012) parser written in Java running from command-line interface (CLI). SDFEater not only ~~eats~~ parse your SDF files, but also can add additional data to the output.

## Publications and resources

If you need more detailed information, take a look at these publications and resources. There you will find detailed description of the parser, performance tests and example Cypher outputs.

1. Ł. Szeremeta, "SDFEater: A Parser for Chemoinformatics Formats"
9 2018 [Online]. Available: https://doi.org/10.26434/chemrxiv.7123193.
2. D. Tomaszuk and Ł. Szeremeta, "Named Property Graphs" in Proceedings of the 2018 Federated Conference on Computer Science and Information Systems, ser. Annals of Computer Science and
Information Systems, M. Ganzha, L. Maciaszek, and M. Paprzycki, Eds., vol. 15. IEEE, 2018, pp. 173–177. (2018) [Online]. Available: http://dx.doi.org/10.15439/2018F103.
3. Ł. Szeremeta and D. Tomaszuk, “SDFParser example Cypher outputs”. figshare, 10-May-2018 [Online]. Available: https://doi.org/10.6084/m9.figshare.6249962.
4. D. Tomaszuk, “chemskos”. figshare, 29-Aug-2018 [Online]. Available: https://doi.org/10.6084/m9.figshare.7022144.

## How to start

Simply download one of the [ready to use JAR file](https://github.com/lszeremeta/SDFEater/releases) from project releases. You can also [clone this repository](https://help.github.com/articles/cloning-a-repository/) and build the project yourself.
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* `rdfa` - Simple HTML with [RDFa](http://rdfa.info/) (based on [MolecularEntitly](https://bioschemas.org/types/MolecularEntity/) type)
* `microdata` - Simple HTML with [Microdata](https://www.w3.org/TR/microdata/) (based on [MolecularEntitly](https://bioschemas.org/types/MolecularEntity/) type)

## Publications and resources

If you need more detailed information, take a look at these publications and resources. There you will find detailed description of the parser, performance tests and example Cypher outputs.

1. Ł. Szeremeta, "SDFEater: A Parser for Chemoinformatics Formats"
9 2018 [Online]. Available: https://doi.org/10.26434/chemrxiv.7123193.
2. D. Tomaszuk and Ł. Szeremeta, "Named Property Graphs" in Proceedings of the 2018 Federated Conference on Computer Science and Information Systems, ser. Annals of Computer Science and
Information Systems, M. Ganzha, L. Maciaszek, and M. Paprzycki, Eds., vol. 15. IEEE, 2018, pp. 173–177. (2018) [Online]. Available: http://dx.doi.org/10.15439/2018F103.
3. Ł. Szeremeta and D. Tomaszuk, “SDFParser example Cypher outputs”. figshare, 10-May-2018 [Online]. Available: https://doi.org/10.6084/m9.figshare.6249962.
4. D. Tomaszuk, “chemskos”. figshare, 29-Aug-2018 [Online]. Available: https://doi.org/10.6084/m9.figshare.7022144.

## Used open source projects

* [Apache Commons CLI](https://github.com/apache/commons-cli) as CLI controller ([Apache License 2.0](https://www.apache.org/licenses/LICENSE-2.0)),
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