do_query: Query the Metabolomics Workbench database

In computational-metabolomics/metabolomicsWorkbenchR: Metabolomics Workbench in R

Query the Metabolomics Workbench database

Description

Sends a query to the metabolomics database and returns the result. Note that while objects derived from mw_base can be used the recommended approach is to use character inputs.

Usage

do_query(context, input_item, input_value, output_item)

## S4 method for signature 'character,character,character,character'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_moverz_context,list,character,mw_output_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_moverz_context,list,character,character'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_moverz_context,list,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_moverz_context,character,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'character,character,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_exactmass_context,list,character,mw_output_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_exactmass_context,list,character,character'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_exactmass_context,list,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_exactmass_context,character,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'character,character,character,missing'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_context,mw_input_item,character,mw_output_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_context,mw_input_item,character,mw_SE_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 
## 'mw_context,mw_input_item,character,mw_untarg_SE_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_context,mw_input_item,character,mw_DE_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 
## 'mw_context,mw_input_item,character,mw_untarg_DE_item'
do_query(context, input_item, input_value, output_item)

## S4 method for signature 'mw_context,mw_input_item,character,mw_MAE_item'
do_query(context, input_item, input_value, output_item)

Arguments

context	A valid context name (character)
input_item	A valid input_item name (character)
input_value	The value for the input item (character).
output_item	A valid output_item (character).

Value

A data.frame, or other output appropriate to the output_item.

Examples

# Get a summary of all studies with "diabetes" in the title

df = do_query(
  context = 'study',
  input_item = 'study_title',
  input_value = 'diabetes',
  output_item = 'summary'  
)

computational-metabolomics/metabolomicsWorkbenchR documentation built on Oct. 3, 2023, 7 a.m.