register_entities_workbook: register entities via list of R data-frames

Description Usage Arguments

View source: R/api_excel_loader.R

Description

Register entities using list of R data-frames list of R data-frames has complete data about metadata (PROJECT, DATASET, INDIVIDUAL, ...) , and links to files storing the MeasurementData entities (e.g. RNASeq, Variant etc.)

Usage

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register_entities_workbook(workbook, register_upto_entity = c("all",
  "ONTOLOGY", "DATASET", "DEFINITION", "INDIVIDUAL", "BIOSAMPLE",
  "MEASUREMENTSET"), register_measurement_entity = c("all",
  "RNAQUANTIFICATION", "VARIANT", "FUSION", "PROTEOMICS", "COPYNUMBER_SEG",
  "COPYNUMBER_MAT"), pipeline_name_filter = NULL, con = NULL)

Arguments

register_upto_entity

use this parameter to restrict load up to an user-specified entity. e.g. you can load up to Ontology, Dataset (and Project), Definition and not load the rest. The ordering is same as in the parameter definition below. Default value is all i.e. all entities are loaded

register_measurement_entity

use this parameter to restrict which measurement-data types should be loaded by the function. Default value is all i.e. all measurement-types are loaded

pipeline_name_filter

use this filter to restrict data-loading to pipelines with fully/partially matched names. Default value is NULL (i.e. no checking by name done)


Paradigm4/revealgenomics documentation built on Oct. 4, 2018, 8:19 p.m.