diff --git a/docs/4_user_guide/4_3_phenopackets.rst b/docs/4_user_guide/4_3_phenopackets.rst index 2fe78c4..36b3756 100755 --- a/docs/4_user_guide/4_3_phenopackets.rst +++ b/docs/4_user_guide/4_3_phenopackets.rst @@ -88,19 +88,19 @@ _________ To provide an overview, the RareLink-Phenopacket module consists of the following components: -- ``mappings`` (`GitHub Folder `_): +- ``mappings`` (`GitHub Folder `_): Contains all the mappings from the REDCap data model to the respective blocks in the Phenopacket schema without containing data-model specific values or codes. -- ``DataProcessor`` Class (`GitHub Folder `_): +- ``DataProcessor`` Class (`GitHub Folder `_): Contains all functions to process any REDCap data to Phenopacket-compliant data, including *field fetching*, *data drocessing*, *data validation*, *Label & Mapping*, *repeated element*, and *generation* methods. -- ``create`` (`GitHub Folder `_): +- ``create`` (`GitHub Folder `_): Contains the main function to generate Phenopackets from the processed data. -- ``write`` (`GitHub Folder `_): +- ``write`` (`GitHub Folder `_): Contains the function to write the generated Phenopackets to a JSON file. -- ``phenopacket pipeline`` (`GitHub Folder `_): +- ``phenopacket pipeline`` (`GitHub Folder `_): Contains the pipeline to generate Phenopackets from the processed data.