processElements: Processes JSON as a vector of elements

In jsicherman/GemmAPI: A wrapper for Gemma's Restful API to access curated gene expression data and differential expression analyses

Processes JSON as a vector of elements

Description

Processes JSON as a vector of elements

Usage

processElements(d)

Arguments

d	The JSON to process

Value

A data table with information about the probes representing a gene across all platrofms. A list if raw = TRUE. A 404 error if the given identifier does not map to any genes.

The fields of the output data.table are:

• element.name: Name of the element. Typically the probeset name

• element.description: A free text field providing optional information about the element

• platform.shortName: Shortname of the platform given by Gemma. Typically the GPL identifier.

• platform.name: Full name of the platform

• platform.ID: Id number of the platform given by Gemma

• platform.type: Type of the platform.

• platform.description: Free text field describing the platform.

• platform.troubled: Whether the platform is marked as troubled by a Gemma curator.

• taxon.name: Name of the species platform was made for

• taxon.scientific: Scientific name for the taxon

• taxon.ID: Internal identifier given to the species by Gemma

• taxon.NCBI: NCBI ID of the taxon

• taxon.database.name: Underlying database used in Gemma for the taxon

• taxon.database.ID: ID of the underyling database used in Gemma for the taxon

jsicherman/GemmAPI documentation built on Oct. 25, 2024, 5:17 p.m.