createSampleSubmission: Create a SomaLogic Sample Submission Form

In readat: Functionality to Read and Manipulate SomaLogic ADAT files

Description

Creates a data table of contents for a SomaLogic sample submission form.

Usage

createSampleSubmission(slides, controls, comments, samples,
  sampleMatrix = c("EDTA-Plasma", "Sodium Citrate Plasma", "Serum"),
  siteId = "WCQ", studyName = "", studyId = "", runName = "Set A")

Arguments

slides	A data frame of slide data, as imported by readSlides.
controls	A data frame of control data, as imported by readControls.
comments	A data frame of comment data, as imported by readComments.
samples	A data frame of sample data, as imported by readSamples.
sampleMatrix	A string giving the type of samples (plamsa or serum).
siteId	A string giving the SomaLogic ID of your site or institution.
studyName	A string giving your institution's name for the study.
studyId	A string giving the SomaLogic ID of the study
runName	A string naming the plate.

Value

A data table with the 96 rows (one plate worth, with each row representing a sample). It contains the following columns:

SampleNumber

One to ninety six.

SlideId

From slides.csv.

Subarray

Position in slide, from 1 to 8.

PlatePosition

Position in plate, from A1 to H12

PercentDilution

Always 40.

BarCode

From controls.csv.

SampleNotes

From controls.csv.

AssayNotes

From controls.csv.

SampleId

From samples.csv.

SampleMatrix

sampleMatrix for samples; blank for controls.

SiteId

siteId for samples; blank for controls.

StudyName

studyName for samples; blank for controls.

TimePoint

Currently blank.

SampleGroup

Currently blank.

SampleDescription

Currently blank.

StudyId

studyId for samples; blank for controls.

RunName

runName for samples; blank for controls.

See Also

writeSampleSubmissionForm for usage examples.

readat documentation built on Oct. 31, 2019, 8:19 a.m.