SDFEater: A Parser for Chemoinformatics Formats

25 September 2018, Version 2
This content is a preprint and has not undergone peer review at the time of posting.


The use of computers to store and process different types of data is growing every day. The same applies to chemical data. SDF and Open Babel are recognized solutions in this field. However, each solution has its drawbacks, which are revealed in specific applications. It is important to be able to easily convert the collected data from one format to another. For this reason, we present SDFEater – a parser that allows to move data written in SDF to other formats including OpenCypher. This query language allows to import data on chemical compounds and store them in a graph database using our named property graphs model.


data models
Data models
chemoinformatics tools
named property graph
data parser
cheminformatics tool

Supplementary weblinks


Comments are not moderated before they are posted, but they can be removed by the site moderators if they are found to be in contravention of our Commenting Policy [opens in a new tab] - please read this policy before you post. Comments should be used for scholarly discussion of the content in question. You can find more information about how to use the commenting feature here [opens in a new tab] .
This site is protected by reCAPTCHA and the Google Privacy Policy [opens in a new tab] and Terms of Service [opens in a new tab] apply.