Attention

This repo is an adaption of https://github.com/ssec-jhu/biospecdb. Images present within this documentation may not entirely reflect the exact working content of this application.

Data Collection Model

Patient & Visit

uploader.models.Patient(*args, **kwargs)	Model an individual patient.
uploader.models.Visit(*args, **kwargs)	Model a patient's visitation to collect health data and biological data.

BioSample

uploader.models.BioSampleType(*args, **kwargs)	The type of biosample collected.
uploader.models.BioSample(*args, **kwargs)	Model biological sample and collection method.

Observations

uploader.models.Observable(*args, **kwargs)	Model an individual observable, observation, or health condition.
uploader.models.Observation(*args, **kwargs)	A patient's instance of a single observable.

ArrayData

uploader.models.Instrument(*args, **kwargs)	Model the instrument/device used to measure array data.
uploader.models.ArrayMeasurementType(*args, ...)	Array measurement type.
uploader.models.ArrayData(*args, **kwargs)	Model array data measured by instrument from biosample data.

Bulk Data Uploads

uploader.models.UploadedFile(*args, **kwargs)

Model for ingesting bulk data uploads of both array data and meta data files.

Quality Control Annotations

biodb.qc.qcfilter.QcFilter()
uploader.models.QCAnnotator(*args, **kwargs)	Quality Control annotator.
uploader.models.QCAnnotation(*args, **kwargs)	A Quality Control annotation of a array data entry.