findWells: Find WellLocations

Description Usage Arguments Value Examples

View source: R/findDataLocations.R

Description

Find all wells on all plates using the following set of parameters:

Usage

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findWells(pathogens = NULL, experiments = NULL, plates = NULL,
  well.rows = NULL, well.cols = NULL, well.names = NULL,
  well.types = NULL, contents = NULL, id.openBIS = NULL, id.infx = NULL,
  name = NULL, verbose = FALSE)

Arguments

pathogens

Narrow down the results by selecting pathogens (exact, matches, ignoring case).

experiments

Name of the experiment to be considered (regular expression, case insensitive).

plates

A vector of regular expressions for plates.

well.rows

All rows to be included (a vector of characters, exact match, case insensitive)

well.cols

The columns to be included (a vector of integers)

well.names

A vector of well names (e.g. B14), expecting strings, case insensitive matching.

well.types

A vector of regular expressions that is matched with the well.types column in well databases.

contents

This vector of strings/integers is matched against the three well database columns id.openBIS, id.infx and name via case insensitive regular expressions. In case it is specified, the next three parameters are ignored.

id.openBIS

A vector of regular expressions that is matched against the id.openBIS column.

id.infx

A vector of regular expressions that is matched against the id.infx column.

name

A vector of regular expressions that is matched against the name column.

Value

A list of WellLocation objects.

Examples

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set1 <- findWells(contents="MTOR", experiments="brucella-du-k")
set2 <- findWells(contents=2475, experiments="brucella-au-k[1-3]")
set3 <- findWells(contents="SCRAMBLED", experiments="brucella-du-k")

nbenn/singleCellFeatures documentation built on May 23, 2019, 12:24 p.m.