getQuery {DIAlignR} | R Documentation

## Generate SQL query to fetch information from osw files.

### Description

Generate SQL query to fetch information from osw files.

### Usage

    getQuery(maxFdrQuery, oswMerged = TRUE, analytes = NULL,
      filename = NULL, runType = "DIA_Proteomics",
      analyteInGroupLabel = FALSE)

### Arguments

`maxFdrQuery` | (numeric) value between 0 and 1. It is used to filter features from osw file which have SCORE_MS2.QVALUE less than itself.
`oswMerged` | (logical) TRUE for experiment-wide FDR and FALSE for run-specific FDR by pyprophet.
`analytes` | (vector of strings) transition_group_ids for which features are to be extracted. analyteInGroupLabel must be set according the pattern used here.
`filename` | (string) as mentioned in RUN table of osw files..
`runType` | (char) This must be one of the strings "DIA_proteomics", "DIA_Metabolomics".
`analyteInGroupLabel` | (logical) TRUE for getting analytes as PRECURSOR.GROUP_LABEL from osw file.

### Value

SQL query to be searched.

### Author(s)

Shubham Gupta, shubh.gupta@mail.utoronto.ca

ORCID: 0000-0003-3500-8152

License: (c) Author (2019) + GPL-3 Date: 2019-12-14

[Package DIAlignR version 0.99.12 Index]