getAnalytesQuery: Generate SQL query to fetch limited information from osw...

In Roestlab/DIAlign: Dynamic Programming Based Alignment of MS2 Chromatograms

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, [e-mail]

ORCID: 0000-0003-3500-8152

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

See Also

getOswAnalytes

Roestlab/DIAlign documentation built on Feb. 25, 2021, 5:18 p.m.