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Italics on Normalization
Co-authored-by: Lukas Pielsticker <50139597+lukaspie@users.noreply.github.com>
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paper/paper.md

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@@ -163,7 +163,7 @@ While pynxtools works as a standalone tool, it can also be integrated directly i
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pynxtools extends `NOMAD`'s data schema (called _Metainfo_ [@Ghiringhelli:2017]) by integrating NeXus definitions as a `NOMAD` _Schema Package_, adding NeXus-specific quantities and enabling interoperability through links to other standardized data representations in `NOMAD`. The _dataconverter_ is integrated into `NOMAD`, making the conversion of data to NeXus accessible via the `NOMAD` GUI. The _dataconverter_ also processes manually entered `NOMAD` ELN data in the conversion.
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The `NOMAD` Parser module in pynxtools (_NexusParser_) extracts structured data from NeXus HDF5 files to populate `NOMAD` with _Metainfo_ object instances as defined by the pynxtools schema package. This enables ingestion of NeXus data directly into `NOMAD`. Parsed data is post-processed using `NOMAD`'s Normalization pipeline. This includes automatic handling of units, linking references (including sample and instrument identifiers defined elsewhere in `NOMAD`), and populating derived quantities needed for advanced search and visualization.
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The `NOMAD` Parser module in pynxtools (_NexusParser_) extracts structured data from NeXus HDF5 files to populate `NOMAD` with _Metainfo_ object instances as defined by the pynxtools schema package. This enables ingestion of NeXus data directly into `NOMAD`. Parsed data is post-processed using `NOMAD`'s _Normalization_ pipeline. This includes automatic handling of units, linking references (including sample and instrument identifiers defined elsewhere in `NOMAD`), and populating derived quantities needed for advanced search and visualization.
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pynxtools contains an integrated Search Application for NeXus data within `NOMAD`, powered by `Elasticsearch` [@elasticsearch:2025]. This provides a search dashboard whereby users can efficiently filter uploaded data based on parameters like experiment type, upload timestamp, and domain- and technique-specific quantities. The entire pynxtools workflow (conversion, parsing, and normalization) is exemplified in a representative `NOMAD` Example Upload that is shipped with the package. This example helps new users understand the workflow and serves as a template to adapt the plugin to new NeXus applications.
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