getAnalytesQuery {DIAlignR}R Documentation

Generate SQL query to fetch limited information from osw files.

Description

Generate SQL query to fetch limited information from osw files.

Usage

getAnalytesQuery(
  maxFdrQuery,
  oswMerged = TRUE,
  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.

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

See Also

getOswAnalytes


[Package DIAlignR version 1.2.0 Index]